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-Attribute,Description,Valid Values,DependsOn,Required,Source,Parent,Properties,DependsOn Component,Validation Rules,.ID,.Type,.Module,.Root,.SubOf,.Range,.Cardinality,.EditorNote
-HPLC,"Frequently referred to simply as HPLC, this form of column chromatography is used frequently in biochemistry. The analyte is forced through a column by liquid at high pressure, which decreases the time the separated components remain on the stationary phase.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C16434,assay,,,,HPLC,Class,Assay,Assay,Proteomics_Assay,,,
-elevated plus maze test,"A method which utilizes an experimental apparatus consisting of four arms, usually two enclosed and two open, in the shape of a plus (+) upon which the test animal can walk. The maze is elevated a set distance, for example 40 to 60 centimeters, above the floor or platform upon which the apparatus sits.",,,FALSE,http://purl.obolibrary.org/obo/MMO_0000262,assay,,,,Elevated_Plus_Maze_Test,Class,Assay,Assay,Behavioral_Assay,,,
-open field test,"A test utilizing an enclosure consisting of a single area bordered by clear or opaque walls, used to measure movement, exploratory behavior, etc of an experimental subject.",,,FALSE,http://purl.obolibrary.org/obo/MMO_0000258,assay,,,,Open_Field_Test,Class,Assay,Assay,Behavioral_Assay,,,
-rotarod performance test,"A method that utilizes a device consisting of a rotating rod the speed of which is mechanically driven and precisely controlled, for instance held constant or accelerated. The rotarod test is often used to measure riding time or endurance in order to evaluate balance, motor coordination or grip strength.",,,FALSE,http://purl.obolibrary.org/obo/MMO_0000567,assay,,,,Rotarod_Performance_Test,Class,Assay,Assay,Behavioral_Assay,,,
-mRNA counts,A mRNA profiling assay using digital molecular barcoding technology to quantify target mRNA molecules without the need for amplification.,,,FALSE,Sage Bionetworks,assay,,,,MRNA_Counts,Class,Assay,Assay,RNA_Assay,,,
-high content screen,An image analysis technique combining automated fluorescence microscopy with multi-parameter quantitative image analysis for the large scale study of cells (cellomics).,,,FALSE,http://www.ebi.ac.uk/efo/EFO_0007550,assay,,,,High_Content_Screen,Class,Assay,Assay,Imaging_Assay,,,
-immunocytochemistry,The branch of immunochemistry dealing with cells and cellular activity; the application of immunochemical techniques to cytochemistry.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C17731,assay,,,,Immunocytochemistry,Class,Assay,Assay,Immuno_Assay,,,
-immunofluorescence,An immunological procedure in which the antibodies are coupled with molecules which fluoresce under ultra violet (UV) light. This makes them particularly suitable for detection of specific antigens in tissues or on cells.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C17370,assay,,,,Immunofluorescence,Class,Assay,Assay,Immuno_Assay,,,
-autoradiography,A radioactivity detection technique using X- ray film to visualize molecules or fragments of molecules that have been radioactively labeled.,,,FALSE,http://purl.obolibrary.org/obo/ERO_0000716,assay,,,,Autoradiography,Class,Assay,Assay,Radio_Assay,,,
-reporter gene assay,"Reporter gene assay measures the gene expression from a reporter gene. The reporter gene is inserted under the control of a foreign promoter or an artificial regulatory element of interest. Reporters include luciferase, beta galactosidase, beta lactamase, chloramphenicol acetyl transferase, or a fluorescent protein.",,,FALSE,http://purl.obolibrary.org/obo/OBI_0002082,assay,,,,Reporter_Gene_Assay,Class,Assay,Assay,RNA_Assay,,,
-electrochemiluminescence,"A method in which electromagnetic radiation, in the form of light emission, is generated from an electrochemical reaction in a solution.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C111193,assay,,,,Electrochemiluminescence,Class,Assay,Assay,RNA_Assay,,,
-in vivo tumor growth,"The growth of a tumor measured using calipers, ruler, or another similar measurement device. See also """"in vivo bioluminescence"""".",,,FALSE,Sage Bionetworks,assay,,,,In_Vivo_Tumor_Growth,Class,Assay,Assay,Volume_Measurement_Assay,,,
-blood chemistry measurement,The determination of the measured concentrations of chemical constituents of the blood by assay in a clinical laboratory.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C47868,assay,,,,Blood_Chemistry_Measurement,Class,Assay,Assay,Clinical_Assay_Template,,,
-in vivo bioluminescence,An imaging assay that allows detection of bioluminescence from a living organism or organisms.,,,FALSE,http://purl.obolibrary.org/obo/ERO_0000651,assay,,,,In_Vivo_Bioluminescence,Class,Assay,Assay,Imaging_Assay,,,
-immunohistochemistry,An immunostaining assay to detect and potentially localize antigens within the cells of a tissue section,,,FALSE,http://purl.obolibrary.org/obo/OBI_0001986,assay,,,,Immunohistochemistry,Class,Assay,Assay,Immuno_Assay,,,
-NOMe-seq,Nucleosome Occupancy and Methylome Sequencing,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C106053,assay,,,,NOMe-Seq,Class,Assay,Assay,Epigenetics_Assay,,,
-FIA-MSMS,Flow injection analysis - tandem mass spectrometer,,,FALSE,https://www.ncbi.nlm.nih.gov/pubmed/28667829,assay,,,,FIA-MSMS,Class,Assay,Assay,Proteomics_Assay,,,
-ultra high-performance liquid chromatography/tandem mass spectrometry,"UPLC-MSMS is an analytical technique wherein ultra-high performance liquid chromatography is coupled to tandem mass spectrometry in order to separate, identify, and quantify substances in a sample.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C122176,assay,,,,Ultra_High-performance_Liquid_Chromatography_Tandem_Mass_Spectrometry,Class,Assay,Assay,Proteomics_Assay,,,
-high-performance liquid chromatography/tandem mass spectrometry,"HPLC-MSMS is an analytical technique wherein high performance liquid chromatography is coupled to tandem mass spectrometry in order to separate, identify, and quantify substances in a sample.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C120691,assay,,,,High-performance_Liquid_Chromatography_Tandem_Mass_Spectrometry,Class,Assay,Assay,Proteomics_Assay,,,
-liquid chromatography-electrochemical detection,"A liquid chromatography method that is sensitive to compounds which can be either reduced or oxidised. The mobile phase passes directly over the working electrode, which is set to the specific potential required for oxidation or reduction. The current produced is then measured.",,,FALSE,http://purl.obolibrary.org/obo/CHMO_0001746,assay,,,,Liquid_Chromatography-Electrochemical_Detection,Class,Assay,Assay,Proteomics_Assay,,,
-RNA-seq,RNA Sequencing measurements,,,FALSE,http://purl.obolibrary.org/obo/OBI_0001271,assay,,,,RNA-Seq,Class,Assay,Assay,RNA_Assay,,,
-miRNA-seq,Small RNA measurements collected from RNA sequencing experiments,,,FALSE,http://purl.obolibrary.org/obo/OBI_0002112,assay,,,,MiRNA-Seq,Class,Assay,Assay,RNA_Assay,,,
-liquid chromatography/tandem mass spectrometry,"LC-MSMS is an analytical technique wherein liquid chromatography is coupled to tandem mass spectrometry in order to separate, identify, and quantify substances in a sample.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C122168,assay,,,,Liquid_Chromatography_Tandem_Mass_Spectrometry,Class,Assay,Assay,Proteomics_Assay,,,
-liquid chromatography/mass spectrometry,"LC-MS is a hyphenated technique, combining the separation power of liquid chromatography (LC), an analytical chromatographic technique for separating ions or molecules dissolved in a solvent, with the detection power of mass spectrometry(MS), a technique to separate gas phase ions according their m/z (mass to charge ratio) value. Used for drug screening, pharmacology studies, environmental analyses and forensics.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C18475,assay,,,,Liquid_Chromatography_Mass_Spectrometry,Class,Assay,Assay,Proteomics_Assay,,,
-lncRNA-seq,Long non-coding RNA measurements collected from RNA-Seq experiments,,,FALSE,,assay,,,,LCRNA-Seq,Class,Assay,Assay,RNA_Assay,,,
-whole exome sequencing,A procedure that can determine the DNA sequence for all of the exons in an individual.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C101295,assay,,,,Whole_Exome_Sequencing,Class,Assay,Assay,DNA_Assay,,,
-Sanger sequencing,"A DNA sequencing technique in which a mixture of deoxynucleosidetriphosphates (dNTPs) and chain-terminating dNTPs, which are radioactively or fluorescently labeled, are combined within the reaction mixture. Once the reaction is complete, the DNA strands are separated by size, and the labeled chain terminating dNTPs can be read in sequence by the investigator or by a machine.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C19641,assay,,,,Sanger_Sequencing,Class,Assay,Assay,DNA_Assay,,,
-ChIP-seq,Chromatin immuno-precipitation followed by sequencing,,,FALSE,http://purl.obolibrary.org/obo/OBI_0000716,assay,,,,ChIP-Seq,Class,Assay,Assay,Epigenetics_Assay,,,
-RNA array,RNA measurements captured by array technology,,,FALSE,http://purl.obolibrary.org/obo/OBI_0001463,assay,,,,RNA_Array,Class,Assay,Assay,RNA_Assay,,,
-SNP array,SNP measurements captured by array technology,,,FALSE,http://purl.obolibrary.org/obo/OBI_0001204,assay,,,,SNP_Array,Class,Assay,Assay,DNA_Assay,,,
-methylation array,Methylation data captured by array technology,,,FALSE,http://purl.obolibrary.org/obo/OBI_0001332,assay,,,,Methylation_Array,Class,Assay,Assay,Epigenetics_Assay,,,
-miRNA array,microRNA measurements captured by array technology,,,FALSE,http://purl.obolibrary.org/obo/OBI_0001335,assay,,,,MiRNA_Array,Class,Assay,Assay,RNA_Assay,,,
-bisulfite sequencing,Methylation data captured by sequencing of DNA treated by a bisulfite-based chemical process,,,FALSE,http://purl.obolibrary.org/obo/OBI_0000748,assay,,,,Bisulfite_Seq,Class,Assay,Assay,Epigenetics_Assay,,,
-ATAC-seq,Open chromatin regions measured by sequencing DNA after assay for transposase-accessible chromatin (ATAC) treatment,,,FALSE,http://purl.obolibrary.org/obo/OBI_0002039,assay,,,,ATAC_Seq,Class,Assay,Assay,Epigenetics_Assay,,,
-HI-C,Chromatin interactions detected by HI-C protocol,,,FALSE,http://www.ebi.ac.uk/efo/EFO_0007693,assay,,,,HI-C,Class,Assay,Assay,Epigenetics_Assay,,,
-ERR bisulfite sequencing,Enhanced reduced representation bisulfite sequencing (ERRBS) ,,,FALSE,,assay,,,,Err_Bisulfite_Seq,Class,Assay,Assay,Bisulfite_Seq,,,
-ISO-seq,Full isoform sequencing,,,FALSE,,assay,,,,ISO-Seq,Class,Assay,Assay,RNA_Assay,,,
-western blot,A multistep process in which a mixture of proteins is separated by gel electrophoresis,,,FALSE,http://purl.obolibrary.org/obo/MMO_0000338,assay,,,,Western_Blot,Class,Assay,Assay,Proteomics_Assay,,,
-whole genome sequencing,Laboratory technique to sequence the complete DNA sequence of an organism's genome at a single time,,,FALSE,http://edamontology.org/topic_3673,assay,,,,Whole_Genome_Seq,Class,Assay,Assay,DNA_Assay,,,
-polymerase chain reaction,"A rapid technique for in vitro amplification of specific DNA or RNA sequences, allowing small quantities of short sequences to be analyzed without cloning",,,FALSE,http://purl.obolibrary.org/obo/MMO_0000459,assay,,,,Polymerase_Chain_Reaction,Class,Assay,Assay,RNA_Assay,,,
-cell viability assay,This assay type measures the cellular state of living or dying by measuring an indicator of life or death,,,FALSE,http://www.bioassayontology.org/bao#BAO_0003009,assay,,,,Cell_Viability_Assay,Class,Assay,Assay,Cell_Assay,,,
-2D Incucyte,Cell viability assay on a 2D monolayer model.,,,FALSE,https://www.essenbioscience.com/en/resources/documents/,assay,,,,2D_Incucyte_Assay,Class,Assay,Assay,Cell_Viability_Assay,,,
-2D CellTiter-Glo,Cell viability assay based on detection of ATP.,,,FALSE,https://www.promega.com/products/cell-health-assays/cell-viability-and-cytotoxicity-assays/celltiter_glo-2_0-assay/?catNum=G9241,assay,,,,2D_Cell_Titer_Glo_Assay,Class,Assay,Assay,Cell_Viability_Assay,,,
-3D microtissue viability,Cell viability assay on a 3D microtissue model.,,,FALSE,https://www.ncbi.nlm.nih.gov/books/NBK343426/,assay,,,,3D_Microtissue_Viability_Assay,Class,Assay,Assay,Cell_Viability_Assay,,,
-2D AlamarBlue fluorescence,"Cell viability assay based on detection of AlamarBlue (resazurin). Living cells reduce blue, non-fluorescent resazurin to the red, fluorescent molecule resorufin. The amount of fluorescence or absorbance is proportional to the number of living cells and corresponds to the cell’s metabolic activity. For the fluorescence-based assay, color change and fluorescence can be detected using 560/590 nm (excitation/emission).",,,FALSE,https://www.thermofisher.com/us/en/home/life-science/cell-analysis/fluorescence-microplate-assays/microplate-assays-cell-viability/alamarblue-assay-cell-viability.html,assay,,,,2D_AlamarBlue_Fluorescence,Class,Assay,Assay,Cell_Viability_Assay,,,
-2D AlamarBlue absorbance,"Cell viability assay based on detection of AlamarBlue (resazurin). Living cells reduce blue, non-fluorescent resazurin to the red, fluorescent molecule resorufin.  The amount of fluorescence or absorbance is proportional to the number of living cells and corresponds to the cell’s metabolic activity. For the absorbance-based assay, absorbance can be read at 570 nm.",,,FALSE,https://www.thermofisher.com/us/en/home/life-science/cell-analysis/fluorescence-microplate-assays/microplate-assays-cell-viability/alamarblue-assay-cell-viability.html,assay,,,,2D_AlamarBlue_Absorbance,Class,Assay,Assay,Cell_Viability_Assay,,,
-in vivo PDX viability,Assay to assess viability using PDX model.,,,FALSE,,assay,,,,In_Vivo_PDX_Viability_Assay,Class,Assay,Assay,Cell_Viability_Assay,,,
-atomic force microscopy,Microscopy which uses a sharp spike (known as a 'tip') mounted on the end of a cantilever to scan the surface of the specimen,,,FALSE,http://purl.obolibrary.org/obo/CHMO_0000113,assay,,,,Atomic_Force_Microscopy,Class,Assay,Assay,Imaging_Assay,,,
-brightfield microscopy,Microscopy where the specimen is illuminated with light transmitted from a source on the opposite side of the specimen from the objective,,,FALSE,http://purl.obolibrary.org/obo/CHMO_0000104,assay,,,,Brightfield_Microscopy,Class,Assay,Assay,Imaging_Assay,,,
-traction force microscopy,An experimental method for determining the tractions on the surface of a biological cell by obtaining measurements of the surrounding displacement field within an in vitro extracellular matrix (ECM),,,FALSE,https://en.wikipedia.org/wiki/Traction_force_microscopy,assay,,,,Traction_Force_Microscopy,Class,Assay,Assay,Imaging_Assay,,,
-phase-contrast microscopy,A simple non-quantitative form of interference microscopy of great utility in visualising live cells. Small differences in optical path length due to differences in refractive index and thickness of structures are visualised as differences in light intensity.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C16857,assay,,,,Phase-Contrast_Microscopy,Class,Assay,Assay,Imaging_Assay,,,
-next generation targeted sequencing,A type of next generation sequencing in which specific genes or portions of genes are targeted for sequencing using amplicon-based workflow.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C130177,assay,,,,NextGeneration_Targeted_Seq,Class,Assay,Assay,DNA_Assay,,,
-MIB/MS,Kinomics assay using multiplexed kinase inhibitor beads and mass spectrometry (MIB/MS),,,FALSE,https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3328787/,assay,,,,MIB_MS,Class,Assay,Assay,Proteomics_Assay,,,
-scCGI-seq,"A method for genome-wide CpG island (CGI) methylation sequencing for single cells (scCGI-seq), combining methylation-sensitive restriction enzyme digestion and multiple displacement amplification for selective detection of methylated CGIs",,,FALSE,https://www.ncbi.nlm.nih.gov/pubmed/28126923,assay,,,,ScCGI_Seq,Class,Assay,Assay,Epigenetics_Assay,,,
-MudPIT,MudPIT is a method for rapid and large-scale protein identification by multidimensional liquid chromatography associated with tandem mass spectrometry,,,FALSE,http://purl.obolibrary.org/obo/MI_0658,assay,,,,MudPIT,Class,Assay,Assay,Proteomics_Assay,,,
-questionnaire,"A document with a set of printed or written questions with a choice of answers, devised for the purposes of a survey or statistical study.",,,FALSE,http://purl.obolibrary.org/obo/OBI_0001000,assay,,,,Questionnaire,Class,Assay,Assay,Behavioral_Assay,,,
-DNA optical mapping,Fluorescent imaging of linearly extended DNA molecules to probe information patterns along the molecules,,,FALSE,https://doi.org/10.1016/j.copbio.2013.01.009,assay,,,,DNA_Optical_Mapping,Class,Assay,Assay,Imaging_Assay,,,
-oxBS-seq,Oxidative bisulfite sequencing (oxBS-Seq) to map 5-methylcytosine and 5-hydroxymethylcytosine,,,FALSE,http://www.ebi.ac.uk/efo/EFO_0008840,assay,,,,OxBS-Seq,Class,Assay,Assay,Epigenetics_Assay,,,
-ribo-seq,Ribosome profiling (Ribo-Seq).,,,FALSE,http://www.ebi.ac.uk/efo/EFO_0008891,assay,,,,Ribo-Seq,Class,Assay,Assay,RNA-Seq,,,
-positron emission tomography,A technique for measuring the gamma radiation produced by collisions of electrons and positrons (anti-electrons) within living tissue.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C17007,assay,,,,Positron_Emission_Tomography,Class,Assay,Assay,Imaging_Assay,,,
-RPPA,Reverse phase protein array (RPPA) is a an assay that measures multiple protein expression levels in a large number of biological samples simultaneously using high quality antibodies,,,FALSE,http://www.bioassayontology.org/bao#BAO_0010030,assay,,,,RPPA,Class,Assay,Assay,Proteomics_Assay,,,
-ELISA,"A highly sensitive technique for detecting and measuring antigens or antibodies in a solution; the solution is run over a surface to which immobilized antibodies specific to the substance have been attached, and if the substance is present, it will bind to the antibody layer, and its presence is verified and visualized with an application of antibodies that have been tagged in some way.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C16553,assay,,,,ELISA,Class,Assay,Assay,Proteomics_Assay,,,
-long term potentiation assay,A measure of the persistent robust synaptic response induced by synchronous stimulation of pre- and postsynaptic cells.,,,FALSE,http://purl.obolibrary.org/obo/VT_0002207,assay,,,,Long_Term_Potentiation_Assay,Class,Assay,Assay,Electrophysiology_Assay,,,
-local field potential recording,An extracellular electrophysiology assay where a microelectrode is placed in the extracellular space of brain tissue to measure action potential and compared to an electrode either outside or inside that tissue.,,,FALSE,http://purl.obolibrary.org/obo/OBI_0002189,assay,,,,Local_Field_Potential_Recording,Class,Assay,Assay,Electrophysiology_Assay,,,
-whole-cell patch clamp,"A patch-clamp assay where the electrode is left in place on the cell, as in cell-attached recordings, but the membrane patch has been perforated, providing access from the interior of the pipette to the intracellular space of the cell. Measurements made with this technique involve recording currents through multiple channels simultaneously, over the membrane of the entire cell.",,,FALSE,http://purl.obolibrary.org/obo/OBI_0002178,assay,,,,Whole-cell_Patch_Clamp,Class,Assay,Assay,Cell_Assay,,,
-sandwich ELISA,"The sandwich ELISA measures the amount of antigen between two layers of antibodies. The antigens to be measured must contain at least two antigenic sites, capable of binding to antibody, since at least two antibodies act in the sandwich. So sandwich assays are restricted to the quantitation of multivalent antigens such as proteins or polysaccharides. Sandwich ELISAs for quantitation of antigens are especially valuable when the concentration of antigens is low and/or they are contained in high concentrations of contaminating protein.",,,FALSE,https://www.ebi.ac.uk/ols/ontologies/bao/terms?iri=http%3A%2F%2Fwww.bioassayontology.org%2Fbao%23BAO_0002421,assay,,,,Sandwich_ELISA,Class,Assay,Assay,ELISA,,,
-laser speckle imaging,"A noninvasive, non-scanning optical imaging technique that provides full-field visualization of blood flow to the tissue being imaged, which provides information about tissue perfusion and the efficiency of disease treatment.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C116492,assay,,,,Laser_Speckle_Imaging,Class,Assay,Assay,Imaging_Assay,,,
-genotyping,The determination of the DNA sequence of an individual.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C45447,assay,,,,Genotyping_Assay,Class,Assay,Assay,DNA_Assay,,,
-TMT quantitation,"An isobaric labeling technique that uses tags containing four regions with the same total molecular weights and structure, so that during chromatographic or electrophoretic separation and in single MS mode, molecules labelled with different tags are indistinguishable.",,,FALSE,http://purl.obolibrary.org/obo/ERO_0002175,assay,,,,TMT_Quantitation,Class,Assay,Assay,Proteomics_Assay,,,
-mass spectrometry,"A generic mass spectrometry assay that allows identification and amount of peptide or protein materials.",,,FALSE,http://purl.obolibrary.org/obo/ERO_0000708,assay,,,,Mass_Spectrometry,Class,Assay,Assay,Proteomics_Assay,,,
-label free mass spectrometry,"A mass spectrometry assay that allows for measurement for endogenous targets in live cell assays, and eliminates the need for tags, dyes, or specialized reagents or engineered cells.",,,FALSE,http://purl.obolibrary.org/obo/ERO_0000708,assay,,,,Label_Free_Mass_Spectrometry,Class,Assay,Assay,Proteomics_Assay,,,
-cell count,A procedure to determine the number of cells in a sample. Also used to mean the result of such a procedure.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C48938,assay,,,,Cell_Count,Class,Assay,Assay,Cell_Assay,,,
-immunoassay,Generic immunology assay,,immunoAssayType,FALSE,,assay,,,,Immuno_Assay,Class,Assay,Assay,Assay,,,
-conventional MRI,"Magnetic resonance imaging using standard protocols for high resolution structural and anatomic characterization, including T1 weighted, T2 weighted, fluid attenuated inversion recovery (FLAIR), and gadolinium-enhanced sequences. [  NCI  ]",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C175525,assay,,,,Conventional_MRI,Class,Assay,Assay,MRI_Assay,,,
-functional MRI,The principle of functional MRI imaging is to take a series of images of an organ in quick succession and to statistically analyze the images for differences among them. Most commonly used in studies of brain function. [  NCI  ],,,FALSE,http://purl.obolibrary.org/obo/NCIT_C17958,assay,,,,Functional_MRI,Class,Assay,Assay,MRI_Assay,,,
-magnetic resonance spectroscopy,Detection and measurement of the resonant spectra of molecular species in a tissue or sample.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C16810,assay,,,,Magnetic_Resonance_Spectroscopy,Class,Assay,Assay,Radio_Assay,,,
-FTIR spectroscopy,"Fourier transform infrared (FTIR) spectroscopy is a technique used to obtain an infrared spectrum of absorption or emission of a solid, liquid or gas. An FTIR spectrometer simultaneously collects high-resolution spectral data over a wide spectral range.",,,FALSE,http://purl.obolibrary.org/obo/CHMO_0000636,assay,,,,FTIR_Spectroscopy,Class,Assay,Assay,Proteomics_Assay,,,
-rheometry,The study of the flow of fluids which cannot be defined by a single value of viscosity. Rheometry (synonym: rheology) is the measurement of the relationship between deformation and stress for these liquids. [ https://orcid.org/0000-0002-0640-0422 ],,,FALSE,http://purl.obolibrary.org/obo/CHMO_0000915,assay,,,,Rheometry,Class,Assay,Assay,Assay,,,
-gel filtration chromatography,"Gel filtration chromatography (synonym: gel permeation chromatography - GPC) is a type of size-exclusion chromatography (SEC), that separates analytes on the basis of size, typically in organic solvents. The technique is often used for the analysis of polymers.",,,FALSE,http://purl.obolibrary.org/obo/CHMO_0001011,assay,,,,Gel_Filtration_Chromatography,Class,Assay,Assay,Proteomics_Assay,,,
-differential scanning calorimetry,"Differential scanning calorimetry (DSC) is the measurement of thermodynamic parameters (e.g. enthalpy) during a chemical or biochemical reaction of both a sample and a reference, by the known variation (step-wise or linear) of one variable, whilst a second is kept constant.",,,FALSE,http://purl.obolibrary.org/obo/CHMO_0000684,assay,,,,Differential_Scanning_Calorimetry,Class,Assay,Assay,Assay,,,
-single molecule drug screen assay,An experiment in which a single molecule was used in an assay,,,FALSE,,assay,,,,Single_Molecule_Drug_Screen,Class,Assay,Assay,Drug_Screen,,,
-small molecule library screen,"High throughput sample analysis of small molecules for purpose such as drug discovery, or biochemical, genetic or pharmacological tests.",,,FALSE,http://purl.obolibrary.org/obo/ERO_0001726,assay,,,,Small_Molecule_Library_Screen,Class,Assay,Assay,Drug_Screen,,,
-combination library screen,High throughput sample analysis of collections of compounds that provide a variety of chemically diverse structures that can be used to identify structure types that have affinity with pharmacological targets.,,,FALSE,http://purl.obolibrary.org/obo/ERO_0001686,assay,,,,Combination_Library_Screen,Class,Assay,Assay,Drug_Screen,,,
-combination screen,,,,FALSE,,assay,,,,Combination_Screen,Class,Assay,Assay,Drug_Screen,,,
-compound screen,,,,FALSE,,assay,,,,Compound_Screen,Class,Assay,Assay,Drug_Screen,,,
-array,,,,FALSE,,assay,,,,Array,Class,Assay,Assay,Assay,,,
-single-cell RNA-seq,A procedure that can determine the nucleotide sequence for all of the RNA transcripts in an amplified nucleotide sample that was derived from a single cell.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C171152,assay,,,,ScRNA_Seq,Class,Assay,Assay,RNA-Seq,,,
-spatial transcriptomics,"assay that allows visualization and quantitative analysis of the transcriptome with spatial resolution in individual tissue sections",,,FALSE,http://www.ebi.ac.uk/efo/EFO_0008994,assay,,,,Spatial_Transcriptomics,Class,Assay,Assay,RNA-Seq,,,
-massively parallel reporter assay,An assay in which multiplexing the construction and interrogation of larger libraries of reporter constructs allows measurement of the transcriptional regulatory activities of thousands to hundreds of thousands of DNA sequences.,,,FALSE,http://purl.obolibrary.org/obo/OBI_0002675,assay,,,,Massively_Parallel_Reporter_Assay,Class,Assay,Assay,Reporter_Gene_Assay,,,
-Riccardi and Ablon scales,"The Riccardi and Ablon scales score severity and visibility of disease, respectively, and are commonly used as a combined assessment for NF1 patients in clinical settings. See https://doi.org/10.1001/archderm.137.11.1421 for example usage.",,,FALSE,https://doi.org/10.1001/archderm.137.11.1421,assay,,,,Riccardi_Ablon_Scales,Class,Assay,Assay,Clinical_Assay,,,
-spatial frequency domain imaging,"Spatial Frequency Domain Imaging (SFDI) is a non-contact, depth-varying and wide-field optical imaging technique for measuring optical properties in a wide field-of-view on a pixel-by-pixel basis. Relevant applications include including burn assessment, skin tissue evaluation, tumor tissue detection, brain tissue monitoring.",,,FALSE,https://doi.org/10.3390/photonics8050162,assay,,,,Spatial_Frequency_Domain_Imaging,Class,Assay,Assay,Imaging_Assay,,,Note that term has no matches in OLS as of June 2022.
-optical coherence tomography,"Optical Coherence Tomography (OCT) combines the principles of ultrasound with the imaging performance of a microscope. OCT uses infrared light waves that reflect off the internal microstructure within the biological tissues. The frequencies and bandwidths of infrared light are orders of magnitude higher than medical ultrasound signals, resulting in greatly increased image resolution, 8-25 times greater than any existing modality. In addition to providing high-level resolutions for the evaluation of microanatomic structures OCT is also able to provide information regarding tissue composition",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C20828,assay,,,,Optical_Coherence_Tomography,Class,Assay,Assay,Imaging_Assay,,,
-CUT&RUN,"Cleavage Under Targets and Release Using Nuclease (CUT&RUN) is a chromatin profiling strategy in which antibody-targeted controlled cleavage by micrococcal nuclease releases specific protein-DNA complexes into the supernatant for paired-end DNA sequencing. (doi:10.7554/eLife.21856)",,,FALSE,,assay,,,,CUT_RUN,Class,Assay,Assay,Epigenetics_Assay,,,
-3D imaging,"Technique to produce 3D images to visualize important structures in great detail. To produce 3D images, many scans are made, and then combined by computers to produce a 3D model, which can then be manipulated. 3D ultrasounds are produced using a somewhat similar technique.",,Assay,FALSE,http://purl.obolibrary.org/obo/NCIT_C18485,assay,,,,3D_Imaging,Class,Assay,Assay,Imaging_Assay,,,
-high frequency ultrasound,"High frequency ultrasound (HFUS) is an imaging modality that can give greater resolution of surface changes in skin (review in PMID:24583666)",,Assay,FALSE,,assay,,,,High_Frequency_Ultrasound,Class,Assay,Assay,Imaging_Assay,,,
-dynamic light scattering,"Dynamic Light Scattering (DLS), also known as photocorrelation spectroscopy, is a method for determining the size distribution of a sample of small particles in solution by illuminating the sample with a light source (usually a laser) and measuring the time-dependent fluctuations in the intensity of the scattered light caused by Brownian motion.",,Assay,FALSE,http://purl.obolibrary.org/obo/CHMO_0000167,assay,,,,Dynamic_Light_Scattering,Class,Assay,Assay,Light_Scattering_Assay,,,
-static light scattering,"Static Light Scattering is a method for determining structure by measuring the total or time-averaged scattering intensity of scattered visible light as a function of angle.",,Assay,FALSE,http://purl.obolibrary.org/obo/CHMO_0000180,assay,,,,Static_Light_Scattering,Class,Assay,Assay,Light_Scattering_Assay,,,
-light scattering assay,"A method for determining structure by measuring the change in direction or energy of scattered visible light. Light is scattered by the electrons surrounding the atomic nuclei in the sample.",,Assay,FALSE,http://purl.obolibrary.org/obo/CHMO_0000166,assay,,,,Light_Scattering_Assay,Class,Assay,Assay,Spectroscopy,,,
-flow cytometry,"A cytometry assay in which an input cell population is put in solution, is passed by a laser, and optical sensors are used to detect scattering of the laser light and/or fluorescence of specific markers to count and characterize the particles in solution",,,FALSE,http://purl.obolibrary.org/obo/OBI_0000916,assay,,,,Flow_Cytometry_Assay,Class,Assay,Assay,Assay,,,
-pattern electroretinogram,"Pattern electroretinogram (PERG) is an electrophysiologic ophthalmologic test that provides non-invasive objective, quantitative measurement of central retinal function. PERG is the retinal response to a pattern-reversing, black-and-white checkerboard or stripped stimulus. The PERG assesses both macular and retinal ganglion cell electrical activity and can help differentiate between diseases of macular versus optic nerve dysfunction.",,,FALSE,https://www.ncbi.nlm.nih.gov/books/NBK560641,assay,,,,Pattern_Electroretinogram,Class,Assay,Assay,Assay,,,
-optokinetic reflex assay,"The optokinetic reflex (OKR), which serves to stabilize a moving image on the retina, is a behavioral response that has many favorable attributes as a test of CNS function. The OKR requires no training, assesses the function of diverse CNS circuits, can be induced repeatedly with minimal fatigue or adaptation, and produces an electronic record that is readily and objectively quantifiable.",,,FALSE,https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0002055,assay,,,,SUSHI,Class,Assay,Assay,Assay,,,
-SUSHI,"Fast super-resolution method that exploits sparsity in the underlying vasculature and statistical independence within the measured signals to detect slow-flowing blood, facilitating noninvasive perfusion measurements.",,,FALSE,https://pubmed.ncbi.nlm.nih.gov/30295619/,assay,,,,Optokinetic_Reflex_Assay,Class,Assay,Assay,Assay,,,
-3D confocal imaging,"Confocal microscopy with 3D reconstruction of the sample tissue.",,,FALSE,https://pubmed.ncbi.nlm.nih.gov/34331281,assay,,,,3D_Confocal_Imaging,Class,Assay,Assay,Imaging_Assay,,,
-3D electron microscopy,"Three-dimensional (3D) reconstruction of single, transparent objects from a collection of projection images recorded with a transmission electron microscope. It offers the opportunity to obtain 3D information on structural cellular arrangements with a high resolution.",,,FALSE,http://purl.obolibrary.org/obo/MI_0410,assay,,,,3D_Electron_Microscopy,Class,Assay,Assay,Imaging_Assay,,,
-cell competition,"An assay in which two or more labeled populations of cells or organoids are mixed, allowed to grow, possibly in the presence of a drug or other perturbagen. The relative quantity of the cell populations is measured at the end of the experiment.",,,FALSE,https://pubmed.ncbi.nlm.nih.gov/22113311/,assay,,,,Competitive_Cell_Growth,Class,Assay,Assay,Imaging_Assay,,,
-body size trait measurement,"Any measurable or observable characteristic related to the overall physical magnitude of an organism.",,,FALSE,http://purl.obolibrary.org/obo/VT_0100005,assay,,,,Body_Size_Trait_Measurement,Class,Assay,Assay,Imaging_Assay,,,
-twin spot assay,"Two individual and genetically different populations of cells that originate from the same mitotic recombination event; twin spots allow a direct and reliable comparison between mutant and wild-type clones, and the size of the wild-type twin can serve as a reference for comparison with the homozygous mutant clones.",,,FALSE,https://pubmed.ncbi.nlm.nih.gov/29378809/,assay,,,,Twin_Spot_Assay,Class,Assay,Assay,Imaging_Assay,,,
-perineurial cell thickness,"Measuring the thickness of the cells in the perineurium, e.g. in developing Drosophila melanogaster.",,,FALSE,http://purl.obolibrary.org/obo/MI_0410,assay,,,,Perineurial_Cell_Thickness,Class,Assay,Assay,Imaging_Assay,,,
-survival,"Any quantitative measurement of survival of or in an individual or study population.",,,FALSE,http://purl.obolibrary.org/obo/MI_0410,assay,,,,Perineurial_Cell_Thickness,Class,Assay,Assay,Assay,,,
-gait measurement,"Quantification of some aspect of a person's gait such as rhythm, variability or step length",,,FALSE,http://www.ebi.ac.uk/efo/EFO_0007680,assay,,,,Gait_Measurement,Class,Assay,Assay,Physiology_Assay,,,
-sorbitol dehydrogenase activity level assay,"An enzymatic activity level assay that measures the activity of sorbitol dehydrogenase in a sample.",,,FALSE,http://purl.obolibrary.org/obo/OBI_0003434,assay,,,,Sorbitol_Dehydrogenase_Activity_Level_Assay,Class,Assay,Assay,Cell_Assay,,,
-T cell receptor repertoire sequencing,"A sequencing assay that determines the sequences of DNA or RNA molecules that encode the repertoire of T cell receptors within an input sample.",,,FALSE,http://purl.obolibrary.org/obo/OBI_0002990,assay,,,,T_Cell_Receptor_Repertoire_Sequencing,Class,Assay,Assay,DNA_Assay,,,
-cell proliferation,"A cellular assay that allows for the measurement of the multiplication or reproduction of cells, resulting in the expansion of a cell population.",,,FALSE,http://purl.obolibrary.org/obo/ERO_0000636,assay,,,,Cell_Proliferation,Class,Assay,Assay,Cell_Assay,,,
-oxygen consumption assay,"Assay measuring oxygen consumption rate (OCR) to assess changes in metabolism in e.g. cancer cells",,,FALSE,https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8275291/,assay,,,,Oxygen_Consumption_Assay,Class,Assay,Assay,Cell_Assay,,,
-reactive oxygen species assay,"Reactive oxygen species (ROS) are measured to assess oxidative events and to investigate their biological importance using antioxidants or inhibitors to modulate the phenomena observed.",,,FALSE,https://www.nature.com/articles/s42255-022-00591-z,assay,,,,Reactive_Oxygen_Species_Assay,Class,Assay,Assay,Cell_Assay,,,See also https://www.nature.com/articles/s42255-022-00591-z for good discussion
-ATPase activity assay,"As an assay used for drug discovery, measures enzymatic ATP hydrolysis to help assess levels of enzymatic activity induced by a candidate drug molecule.",,,FALSE,http://purl.obolibrary.org/obo/MI_0880,assay,,,,ATPase_Activity_Assay,Class,Assay,Assay,Cell_Assay,,,See also https://www.bellbrooklabs.com/atpase-activity-assay-for-drug-discovery/ for discussion
-novelty response behavior assay,"A behavioral assay devised to measure novelty response behavior",,,FALSE,,assay,,,,Novelty_Response_Behavior_Assay,Class,Assay,Assay,Behavioral_Assay,,,
-contextual conditioning behavior assay,"A behavioral assay devised to measure contextual conditioning behavior",,,FALSE,,assay,,,,Contextual_Conditioning_Behavior_Assay,Class,Assay,Assay,Behavioral_Assay,,,
-active avoidance learning behavior assay,"A behavioral assay devised to measure active avoidance learning behavior",,,FALSE,,assay,,,,Active_Avoidance_Learning Behavior_Assay,Class,Assay,Assay,Behavioral_Assay,,,
-focus forming assay,"The focus forming assay (FFA) is an immunostaining technique and a variation of the viral plaque assay. Instead of detecting the plaque formation after virus-induced cell lysis these assays detect infected host cells and infectious virus particles before a plaque is formed.",,,FALSE,,assay,,,,Focus_Forming_Assay,Class,Assay,Assay,Viral_Assay,,,See https://www.bpes.co.uk/focus-forming-assay-virus-titer-quantitation/
-blue native PAGE,"Blue native PAGE (BN-PAGE) permits a high-resolution separation of multi-protein complexes under native conditions. ",,,FALSE,http://purl.obolibrary.org/obo/MI_0276,assay,,,,Blue_Native_PAGE,Class,Assay,Assay,Proteomics_Assay,,,
-in vitro tumorigenesis,"An in vitro assay devised to measure tumor formation",,,FALSE,,assay,,,,In_Vitro_Tumorigenesis,Class,Assay,Assay,Tumorigenesis_Assay,,,
-Matrigel-based tumorigenesis assay,"An assay in which tumor cells are loaded into a Matrigel matrix and measured for tumor formation characteristics",,,FALSE,,assay,,,,Matrigel-based_Tumorigenesis_Assay,Class,Assay,Assay,Tumorigenesis_Assay,,,See https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3230200/
-calcium retention capacity assay,"The CRC assay assesses Ca2+-related mitochondrial functions",,,FALSE,,assay,,,,Calcium_Retention_Capacity_Assay,Class,Assay,Assay,Cell_Assay,,,See https://pubmed.ncbi.nlm.nih.gov/29781984/
-quantitative PCR,"Quantitative PCR (Q-PCR) is used to measure the quantity of a PCR product (commonly in real-time). It quantitatively measures starting amounts of DNA, cDNA, or RNA.",,,FALSE,http://purl.obolibrary.org/obo/MI_1195,assay,,,,Quantitative_PCR,Class,Assay,Assay,RNA_Assay,,,
-clinical data,"Data pertaining to the medical well-being or status of a patient. Category also includes clinical reports and individual patient data.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C15783,assay,,,,Clinical_Data_Assay,Class,Assay,Assay,Assay,,,
-photograph,An image recorded by a camera.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C86035,assay,,"","",Photograph,"",Assay,Assay,"","","",""
-cAMP-Glo Max Assay,"The cAMP-Glo Max Assay from Promega is a bioluminescent assay used for the quantification of cyclic AMP (cAMP) in cell-based assays. It utilizes a luminescent luciferase-based detection system to detect the levels of cAMP in cell lysates, which can be used to study G protein-coupled receptor (GPCR) signaling and other intracellular signaling pathways.",,,FALSE,https://www.promega.com/products/cell-signaling/gpcr-signaling/camp_glo-max-assay/?catNum=V1681,assay,,,,cAMP_Glo_Max,Class,Assay,Assay,Assay,,,
-Von Frey test,Assay applying electrical stimulus to assess pain in rodents.,"","",FALSE,https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5592204/,assay,,"","",Von_Frey_Test,"",Assay,Assay,"","","",""
-targeted exome sequencing,"Also known as Clinical Exome Sequencing, Targeted Exome Sequencing is a subset of WES as it covers a limited number of genes, typically 3000 to 6000 genes.","","",FALSE,https://labassure.com/whole-exome-sequencing-vs-clinical-exome-sequencing/,assay,,"","",Targeted_Exome_Sequencing,"",Assay,Assay,"","","",""
-jumping library,"","","",FALSE,"",assay,,"","",Jumping_Library,Class,Assay,Method,"","","",""
-Child Behavior Checklist for Ages 1.5-5,"A standardized measure designed to detect behavioral and emotional problems in children 1.5-5 years old. The forms obtain parents', daycare providers', and teachers' ratings of 99 problem items plus descriptions of problems, disabilities, what concerns respondents most about the child, and the best things about the child. [ NCI ]","","",FALSE,"http://purl.obolibrary.org/obo/NCIT_C165712",assay,,"","",Child_Behavior_Checklist_for_Ages_1.5-5,Class,Assay,Method,"","","",""
-Child Behavior Checklist for Ages 6-18,"A standardized measure designed to detect behavioral and emotional problems in children and adolescents. It is completed by the parent/caretaker who spends the most time with the child and provides ratings for 20 competence and 120 problem items. [ NCI ]","","",FALSE,"http://purl.obolibrary.org/obo/NCIT_C165711",assay,,"","",Child_Behavior_Checklist_for_Ages_6-18,Class,Assay,Clinical_Assay,"","","",""
-"Social Responsiveness Scale","The Social Responsiveness Scale (SRS; Constantino et al., 2003) is a brief assessment tool for measuring autism traits. ","","",FALSE,"https://doi.org/10.1037/t17260-000",assay,,"","",Social_Responsiveness_Scale,Class,Assay,Clinical_Assay,"","","",""
-"Social Responsiveness Scale, Second Edition","Identifies the presence and severity of social impairment within the autism spectrum and differentiates it from that which occurs in other disorders","","",FALSE,"https://www.wpspublish.com/srs-2-social-responsiveness-scale-second-edition",assay,,"","",Social_Responsiveness_Scale_Second_Edition,Class,Assay,Clinical_Assay,"","","",""
-"NIH Toolbox","A comprehensive set of neuro-behavioral measures that assess cognitive, emotional, sensory, and motor functions, designed to be run on an iPad.","","",FALSE,"http://purl.obolibrary.org/obo/NCIT_C154482",assay,,"","",NIH_Toolbox,Class,Assay,Clinical_Assay,"","","",""
-channel,Fluorescent color labeling for an array,"Cy5, Cy3","",TRUE,"",array,,"","",Channel,"",Assay,Assay_Parameter,"","","",""
-MRISequence,The scanning sequence/modality that is used for a conventional MRI scan.,"T1-weighted,T2-weighted,PD-weighted,Short Tau Inversion Recovery","",FALSE,Sage Bionetworks,experimentalData,,"","",MRI_Sequence,Class,Assay,Assay_Parameter,"","","",""
-T1-weighted,"","","",FALSE,Sage Bionetworks,MRISequence,,"","",T1-weighted,Class,Assay,Assay_Parameter,MRI_Sequence,"","",""
-T2-weighted,"","","",FALSE,Sage Bionetworks,MRISequence,,"","",T2-weighted,Class,Assay,Assay_Parameter,MRI_Sequence,"","",""
-PD-weighted,"","","",FALSE,Sage Bionetworks,MRISequence,,"","",PD-weighted,Class,Assay,Assay_Parameter,MRI_Sequence,"","",""
-Short Tau Inversion Recovery,"","","",FALSE,Sage Bionetworks,MRISequence,,"","",Short_Tau_Inversion_Recovery,Class,Assay,Assay_Parameter,MRI_Sequence,"","",""
-Cy5,Fluorescent dye used for the red channel on an array,"","",FALSE,http://purl.obolibrary.org/obo/FBbi_00000450,channel,,"","",Cy5,Class,Assay,Assay_Parameter,Channel,"","",""
-Cy3,Fluorescent dye used for the green channel on an array,"","",FALSE,http://purl.obolibrary.org/obo/FBbi_00000449,channel,,"","",Cy3,Class,Assay,Assay_Parameter,Channel,"","",""
-overexpression,Gene overexpression refers to genetic techniques in which an organism or cell line is engineered to express increased levels of a gene.,"","",FALSE,http://www.bioassayontology.org/bao#BAO_0002442,genePerturbationType,,"","",overexpression,Class,Assay,Assay_Parameter,Gene_Perturbation,"","",""
-knockdown,"Gene knockdown refers to techniques by which the expression of one or more of an organism's genes is reduced, either through genetic modification (a change in the DNA of one of the organism's chromosomes) or by treatment with a reagent such as a short DNA or RNA oligonucleotide with a sequence complementary to either an mRNA transcript or a gene.","","",FALSE,http://www.bioassayontology.org/bao#BAO_0002433,genePerturbationType,,"","",knockdown,Class,Assay,Assay_Parameter,Gene_Perturbation,"","",""
-knockout,A gene knockout is a genetic technique in which an organism is engineered to carry genes that have been made inoperative (have been 'knocked out' of the organism).,"","",FALSE,http://www.bioassayontology.org/bao#BAO_0002441,genePerturbationType,,"","",knockout,Class,Assay,Assay_Parameter,Gene_Perturbation,"","",""
-non-targeting control,"Use of a guide RNA that is designed to not target any gene in particular, used as a control for a targeting gRNA","","",FALSE,Sage Bionetworks,genePerturbationType,,"","",knockout,Class,Assay,Assay_Parameter,Gene_Perturbation,"","",""
-fr-firststrand,"","","",FALSE,"","",,"","",Fr-firststrand,Class,Assay,Assay_Parameter,NGS_Parameter,Read_Pair_Orientation,"",""
-TruSeq standard total RNA library kit,"","","",FALSE,https://www.illumina.com/products/by-type/sequencing-kits/library-prep-kits/truseq-stranded-total-rna.html,"",,"","",Library_Prep_Tru_Seq,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-10x,10x Genomics library preparation,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,libraryPreparationMethod,,"","",Library_Prep_10x,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-CEL-seq,CEL-Seq library preparation,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,libraryPreparationMethod,,"","",CEL-seq,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-Drop-Seq,Drop-Seq library preparation,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,libraryPreparationMethod,,"","",Drop-Seq,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-Smart-seq2,Smart-seq 2 library preparation,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,libraryPreparationMethod,,"","",Smart-seq2,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-TruSeq,TruSeq library preparation,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,libraryPreparationMethod,,"","",TruSeq,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-Smart-seq4,Smart-seq4 library preparation,"","",FALSE,https://www.takarabio.com/products/next-generation-sequencing/single-cell-rna-and-dna-seq/smart-seq-v4-for-mrna-seq,libraryPreparationMethod,,"","",Smart-seq4,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-Omni-ATAC,Omni-ATAC-seq library preparation,"","",FALSE,https://protocolexchange.researchsquare.com/article/nprot-6107/v1,libraryPreparationMethod,,"","",Omni-ATAC,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-NEBNext mRNA Library Prep Reagent Set for Illumina,NEBNext mRNA Library Prep Reagent Set for Illumina,"","",FALSE,https://www.neb.com/products/e6100-nebnext-mrna-library-prep-reagent-set-for-illumina,libraryPreparationMethod,,"","",NEBNext_mRNA_Library_Prep_Reagent_Set_Illumina,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-IDT xGen Exome Research Panel,"","","",FALSE,https://www.idtdna.com/pages/products/next-generation-sequencing/targeted-sequencing/hybridization-capture/predesigned-panels/xgen-exome-research-panel-v2,libraryPreparationMethod,,"","",IDT_xGen_Exome_Research_Panel,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-Illumina TruSeq DNA Nano,"","","",FALSE,Sage Bionetworks,libraryPreparationMethod,,"","",Illumina_TruSeq_DNA_Nano,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-KAPA HyperPrep Kit PCR-free,KAPA HyperPrep Kits offer a streamlined library preparation protocol that combines several enzymatic steps and eliminates bead cleanups to significantly reduce library preparation time and improve consistency.,"","",FALSE,https://sequencing.roche.com/en/products-solutions/products/sample-preparation/dna-reagents/library-preparation/kapa-hyperprep/ordering.html,libraryPreparationMethod,,"","",KAPA HyperPrep Kit PCR-free,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-KAPA RNA HyperPrep Kit with RiboErase (HMR),"The KAPA RNA HyperPrep Kits utilize novel chemistry that enables the combination of enzymatic steps and fewer reaction purifications, resulting in a truly streamlined solution for the preparation of high-quality RNA-seq libraries.","","",FALSE,https://rochesequencingstore.com/catalog/kapa-rna-hyperprep-kit-with-riboerase-hmr/,libraryPreparationMethod,,"","",KAPA RNA HyperPrep Kit with RiboErase (HMR),Class,Assay,Assay_Parameter,Library_Prep,"","",""
-GTAC@WUSTL in-house prep,"Non-stranded library prep that uses a TruSeq-like (in-house) library design (includes cDNA generation, end-repair, A-tailing, ligation, and PCR amplification with unique dual indexing)","","",FALSE,WUSTL,libraryPreparationMethod,,"","",GTAC@WUSTL in-house prep,Class,Assay,Assay_Parameter,Library_Prep,"","",""
-bulk cell,All cells from bulk sample,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,nucleicAcidSource,,"","",bulk_cell,Class,Assay,Assay_Parameter,Nucleic_Acid_Source,"","",""
-single cell,Single cell,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,nucleicAcidSource,,"","",single_cell,Class,Assay,Assay_Parameter,Nucleic_Acid_Source,"","",""
-bulk nuclei,All nuclei from bulk sample,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,nucleicAcidSource,,"","",bulk_nuclei,Class,Assay,Assay_Parameter,Nucleic_Acid_Source,"","",""
-single nucleus,Single nuclei,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,nucleicAcidSource,,"","",single_nucleus,Class,Assay,Assay_Parameter,Nucleic_Acid_Source,"","",""
-mitochondria,Mitochondria only,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,nucleicAcidSource,,"","",Mitochondria,Class,Assay,Assay_Parameter,Nucleic_Acid_Source,"","",""
-cell lysate,A material entity which is output of a cell lysis process,"","",FALSE,http://purl.obolibrary.org/obo/OBI_1000036,proteinExtractSource,,"","","",Class,Assay,Assay_Parameter,Protein_Extract_Source,Cellular_Component,"",""
-nuclear extract,Nuclear extracts contain proteins in nuclear compartment of the cell,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C19832,proteinExtractSource,,"","","",Class,Assay,Assay_Parameter,Protein_Extract_Source,Cellular_Component,"",""
-mitochondria,Mitochondria only,"","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,proteinExtractSource,,"","","",Class,Assay,Assay_Parameter,Protein_Extract_Source,Cellular_Component,"",""
-cytoplasm,That portion of the cell contained within the plasma membrane but excluding the nucleus.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C13226,proteinExtractSource,,"","","",Class,Assay,Assay_Parameter,Protein_Extract_Source,Cellular_Component,"",""
-1,One of a pair of sequencing reads in which the two members of the pair are related by originating at either end of a clone insert.,"","",FALSE,http://purl.obolibrary.org/obo/SO_0000007,readPair,,"","",Paired_End_1,Class,Assay,Assay_Parameter,Read_Pair,"","",""
-2,One of a pair of sequencing reads in which the two members of the pair are related by originating at either end of a clone insert.,"","",FALSE,http://purl.obolibrary.org/obo/SO_0000007,readPair,,"","",Paired_End_2,Class,Assay,Assay_Parameter,Read_Pair,"","",""
-inward,Reads face each other,"","",FALSE,Sage Bionetworks,readPairOrientation,,"","",Inward_Read,Class,Assay,Assay_Parameter,Read_Pair_Orientation,"","",""
-outward,Reads face away from each other,"","",FALSE,Sage Bionetworks,readPairOrientation,,"","",Outward_Read,Class,Assay,Assay_Parameter,Read_Pair_Orientation,"","",""
-matching,Reads face the same direction,"","",FALSE,Sage Bionetworks,readPairOrientation,,"","",Matching_Read,Class,Assay,Assay_Parameter,Read_Pair_Orientation,"","",""
-forward,Read 1 (or unpaired read) comes from the forward strand and read 2 (if applicable) comes from the reverse strand; equivalent to Tophat 'fr-secondstrand' type,"","",FALSE,Sage Bionetworks,readStrandOrigin,,"","",Forward_Read,Class,Assay,Assay_Parameter,Read_Strand_Origin,"","",""
-reverse,read 1 (or unpaired read) comes from the reverse strand and read 2 (if applicable) comes from the forward strand; equivalent to Tophat 'fr-firststrand' type,"","",FALSE,Sage Bionetworks,readStrandOrigin,,"","",Reverse_Read,Class,Assay,Assay_Parameter,Read_Strand_Origin,"","",""
-singleEnd,A library preparation that results in the creation of a library of 5' ends of DNA.,"","",FALSE,Sage Bionetworks,runType,,"","",Single_End,Class,Assay,Assay_Parameter,Run_Type,"","",""
-pairedEnd,A library preparation that results in the creation of a library of the 5' and 3' ends of DNA or cDNA fragments using adaptors and endonucleases. The preparation may or may not include cloning process.,"","",FALSE,http://purl.obolibrary.org/obo/OBI_0001852,runType,,"","",Paired_End,Class,Assay,Assay_Parameter,Run_Type,"","",""
-KAPA mRNA HyperPrep Kit,The KAPA mRNA HyperPrep Kit is a highly efficient library preparation kit designed for generating stranded RNA-seq libraries with low input amounts and reduced bias.,,,FALSE,https://sequencing.roche.com/global/en/products/group/kapa-rna-hyperprep-kits.html,libraryPreparationMethod,,,,KAPA_mRNA_HyperPrep,Class,Assay,Assay_Parameter,Library_Prep,,,
-RNAi,High throughput sample analysis of RNAi molecules for potential application in gene knockdown or gene silencing of target genes,"","",FALSE,http://purl.obolibrary.org/obo/ERO_0001688,genePerturbationTechnology,,"","",RNAi,Class,Assay,Method,Gene_Perturbation_Technology,"","",""
-CRISPR,"","","",FALSE,"",genePerturbationTechnology,,"","",CRISPR,Class,Assay,Method,Gene_Perturbation_Technology,"","",""
-CRE Recombinase,CRE Recombinase catalyses site-specific recombination between two 34 base pair loxp sites and maintains the phage genome as a monomeric unit-copy plasmid in the lysogenic state.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C17285,genePerturbationTechnology,,"","",CRE Recombinase,Class,Assay,Method,Gene_Perturbation_Technology,"","",""
-rRNAdepletion,Total RNA library with ribosomal RNA depleted.,"","",FALSE,Sage Bionetworks,libraryPrep,,"","",rRNAdepletion,Class,Assay,Method,Library_Prep,"","",""
-polyAselection,RNA selection by polyA tail capture,"","",FALSE,Sage Bionetworks,libraryPrep,,"","",polyAselection,Class,Assay,Method,Library_Prep,"","",""
-lncRNAenrichment,RNA library enriched for lncRNA,"","",FALSE,Sage Bionetworks,libraryPrep,,"","",lncRNAenrichment,Class,Assay,Method,Library_Prep,"","",""
-miRNAenrichment,RNA library with size selection for microRNAs,"","",FALSE,Sage Bionetworks,libraryPrep,,"","",miRNAenrichment,Class,Assay,Method,Library_Prep,"","",""
-scale,An instrument or machine for weighing.,,,FALSE,http://purl.obolibrary.org/obo/MMO_0000217,assay,,,,Scale,Class,Assay,Platform,Platform,,,
-Olympus DP80,Dual-Sensor Monochrome and Color Camera,,,FALSE,https://www.olympus-lifescience.com/en/camera/color/dp80/,platform,,,,Olympus_DP80,Class,Assay,Platform,Platform,,,
-Orbitrap Fusion Lumos Tribrid,Thermo Scientific Orbitrap Fusion Lumos Tribrid Mass Spectrometer,,,FALSE,https://www.thermofisher.com/us/en/home/industrial/mass-spectrometry/liquid-chromatography-mass-spectrometry-lc-ms/lc-ms-systems/orbitrap-lc-ms/orbitrap-tribrid-mass-spectrometers/orbitrap-fusion-lumos-mass-spectrometer.html,platform,,,,Orbitrap_Fusion_Lumos_Tribrid,Class,Assay,Platform,Platform,,,
-Spectramax M Series,A Spectramax M Series Microplate Reader,,,FALSE,https://www.moleculardevices.com/products/microplate-readers/multi-mode-readers/spectramax-m-series-readers,platform,,,,Spectramax_M_Series,Class,Assay,Platform,Platform,,,
-LI-COR Odyssey CLx,A LI-COR Odyssey CLx imaging system,,,FALSE,https://www.licor.com/bio/odyssey-clx/,platform,,,,LI-COR_Odyssey_Clx,Class,Assay,Platform,Platform,,,
-Q Exative HF,Thermo scientific Q Exative,,,FALSE,http://purl.obolibrary.org/obo/MS_10025223,platform,,,,Q_Exative_HF,Class,Assay,Platform,Platform,,,
-Illumina HiSeq 3000,Illumina HiSeq 3000,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL21290,platform,,,,HiSeq3000,Class,Assay,Platform,Platform,,,
-Illumina HiSeq 2500,Illumina HiSeq 2500,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL16791,platform,,,,HiSeq2500,Class,Assay,Platform,Platform,,,
-Illumina HiSeq 4000,Illumina HiSeq 4000,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL20301,platform,,,,HiSeq4000,Class,Assay,Platform,Platform,,,
-Illumina NextSeq 500,Illumina NextSeq 500,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL18573,platform,,,,NextSeq500,Class,Assay,Platform,Platform,,,
-Illumina NextSeq 550,Illumina NextSeq 550,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL21697,platform,,,,NextSeq 550,Class,Assay,Platform,Platform,,,
-Illumina NextSeq 1000,Illumina NextSeq 1000,,,FALSE,,platform,,,,NextSeq 1000,Class,Assay,Platform,Platform,,,
-Illumina NextSeq 2000,Illumina NextSeq 2000,,,FALSE,,platform,,,,NextSeq 2000,Class,Assay,Platform,Platform,,,
-Illumina HiSeq 2000,Illumina HiSeq 2000,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL11154,platform,,,,HiSeq2000,Class,Assay,Platform,Platform,,,
-Illumina MiSeq,Illumina MiSeq,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL15520,platform,,,,MiSeq,Class,Assay,Platform,Platform,,,
-Zeiss LSM 980,A Zeiss Confocal Microscope,,,FALSE,https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=&cad=rja&uact=8&ved=2ahUKEwirj4XuwtXsAhVBrp4KHVZyARIQFjABegQIAhAC&url=https%3A%2F%2Fzeiss.ly%2Flsm980-info&usg=AOvVaw0rD50U0aMwfvt4bdfW0Yjd,platform,,,,Zeiss LSM 980,Class,Assay,Platform,Platform,,,
-Affymetrix Genome-Wide Human SNP 5.0 Array,Affymetrix Genome-Wide Human SNP 5.0 Array,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL6804,platform,,,,Affy5.0,Class,Assay,Platform,Platform,,,
-Affymetrix Genome-Wide Human SNP 6.0 Array,Affymetrix Genome-Wide Human SNP 6.0 Array,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL6801,platform,,,,Affy6.0,Class,Assay,Platform,Platform,,,
-PacBio RS II,PacBio RS II,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL21311,platform,,,,PacBioRSII,Class,Assay,Platform,Platform,,,
-Illumina Genome Analyzer IIx,Illumina Genome Analyzer IIx,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL16061,platform,,,,GAIIx,Class,Assay,Platform,Platform,,,
-Illumina HumanOmni1-Quadv1.0,,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL24663,platform,,,,Illumina_HumanOmni1-Quadv1.0,Class,Assay,Platform,Platform,,,
-Illumina 1M,,,,FALSE,,platform,,,,Illumina_1M,Class,Assay,Platform,Platform,,,
-Illumina h650,,,,FALSE,,platform,,,,Illumina_h650,Class,Assay,Platform,Platform,,,
-Illumina Omni2pt5M,,,,FALSE,,platform,,,,Illumina_Omni2pt5M,Class,Assay,Platform,Platform,,,
-Illumina Omni5M,,,,FALSE,,platform,,,,Illumina_Omni5M,Class,Assay,Platform,Platform,,,
-Illumina MouseWG-6 v2.0 expression beadchip,Whole-genome expression profiling in the mouse,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL6887,platform,,,,Illumina MouseWG-6_v2.0_expression_beadchip,Class,Assay,Platform,Platform,,,
-Perlegen 300Karray,,,,FALSE,,platform,,,,Perlegen300Karray,Class,Assay,Platform,Platform,,,
-Agilent 44Karray,,,,FALSE,,platform,,,,Agilent44Karray,Class,Assay,Platform,Platform,,,
-Illumina WholeGenome DASL,Illumina Human Whole-Genome DASL HT,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL13369,platform,,,,IlluminaWholeGenomeDASL,Class,Assay,Platform,Platform,,,
-Illumina HumanHap300,,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL6083,platform,,,,IlluminaHumanHap300,Class,Assay,Platform,Platform,,,
-Nanostring Counter,,,,FALSE,,platform,,,,NanostringCounter,Class,Assay,Platform,Platform,,,
-LTQ Orbitrap XL,LTQ Orbitrap XL Hybrid Ion Trap-Orbitrap Mass Spectrometer,,,FALSE,https://www.thermofisher.com/order/catalog/product/IQLAAEGAAPFADBMAOK,platform,,,,LTQ_Orbitrap_XL,Class,Assay,Platform,Platform,,,
-Illumina HumanMethylation450,Illumina HumanMethylation450 BeadChip,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL13534,platform,,,,IlluminaHumanMethylation450,Class,Assay,Platform,Platform,,,
-Illumina Infinium MethylationEPIC BeadChip v1.0 (850k),"The version 1.0 Illumina beadchip array interrogates ~850,000 methylation sites per sample at single-nucleotide resolution.",,,FALSE,http://purl.obolibrary.org/obo/OBI_0002131,platform,,,,Illumina Infinium MethylationEPIC_BeadChip_v1,Class,Assay,Platform,Platform,,,
-Illumina Infinium MethylationEPIC BeadChip v2.0 (935k),"The version 2.0 Illumina beadchip array interrogates ~935,000 methylation sites per sample at single-nucleotide resolution.",,,FALSE,,platform,,,,Illumina Infinium MethylationEPIC_BeadChip_v2,Class,Assay,Platform,Platform,,,
-Affymetrix U133AB,,,,FALSE,,platform,,,,AffymetrixU133AB,Class,Assay,Platform,Platform,,,
-Affymetrix Human Gene 1.0 ST Array,Affymetrix Human Gene 1.0 ST Array [transcript (gene) version] in situ oligonucleotide,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL6244,platform,,,,Affymetrix_Human_Gene_1.0_ST_Array,Class,Assay,Platform,Platform,,,
-Affymetrix Human Genome U133 Plus 2.0 Array,Affymetrix Human Genome U133 Plus 2.0 Array,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL570,platform,,,,AffymetrixU133Plus2,Class,Assay,Platform,Platform,,,
-Illumina HiSeq X,Illumina HiSeq X Platform for whole-genome sequencing,,,FALSE,https://www.illumina.com/systems/sequencing-platforms/hiseq-x.html,platform,,,,HiSeqX,Class,Assay,Platform,Platform,,,
-Bionano Irys,Performs whole genome mapping in a nanoscale fluidic environment enabling the structure of the genome to be imaged and then analyzed at the single molecule level,,,FALSE,https://bionanogenomics.com/products/irys/,platform,,,,Bionano_Irys,Class,Assay,Platform,Platform,,,
-Infinium HumanOmniExpressExome,Infinium HumanOmniExpressExome BeadChip,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL18224,platform,,,,Infinium_HumanOmniExpressExome,Class,Assay,Platform,Platform,,,
-Illumina NovaSeq 6000,"A DNA sequencer which is manufactured by the Illumina corporation, with two flow cells and an output of up to 6000 Gb (32-40 reads per run). The sequencer utilizes synthesis technology and patterned flow cells to optimize throughput and even spacing of sequencing clusters.",,,FALSE,http://purl.obolibrary.org/obo/OBI_0002630,platform,,,,Illumina_NovaSeq_6000,Class,Assay,Platform,Platform,,,
-PacBio Sequel IIe System,PacBio Sequel IIe System,,,FALSE,,platform,,,,PacBio_Sequel_Iie_System,Class,Assay,Platform,Platform,,,
-PacBio Sequel II System,PacBio Sequel II System,,,FALSE,,platform,,,,PacBio_Sequel_II_System,Class,Assay,Platform,Platform,,,
-Nanostring GeoMx,NanostringGeoMx,,,FALSE,,platform,,,,Nanostring_GeoMx,Class,Assay,Platform,Platform,,,
-Chromium X,"(From 10x Genomics) Single-cell platform that can analyze hundreds to hundreds of thousands of cells in single run for e.g. gene expression, chromatin accessibility, cell surface proteins, immune clonotype, antigen specificity, CRISPR perturbation screens).",,,FALSE,https://www.10xgenomics.com/chromium-x,platform,,,,Chromium_X,Class,Assay,Platform,Platform,,,
-10x Visium Spatial Gene Expression,"10x Genomics product that includes special slides, reagents and technology to allow whole transcriptome profiling with morphological (spatial) context in FFPE or fresh-frozen tissues. Vendor ref: https://www.10xgenomics.com/products/spatial-gene-expression",,,FALSE,http://www.ebi.ac.uk/efo/EFO_0010961,platform,,,,10x_Visium_Spatial_Gene_Expression,Class,Assay,Platform,Platform,,,
-EnVision 2103 Multiplate Reader,EnVision 2103 Multiplate Reader,,,FALSE,,platform,,,,EnVision_2103,Class,Assay,Platform,Platform,,,
-Vectra H1 3D Imaging System,"(From vendor) Handheld imaging system for clinical-quality 3D imaging; applications for facial aesthetics and clinical documention.",,,FALSE,https://www.canfieldsci.com/imaging-systems/vectra-h1-3d-imaging-system/,platform,,,,Vectra_H1,Class,Assay,Platform,Platform,,,
-Vevo 3100 Imaging System,"(From vendor) A micro-ultrasound imaging system for anatomical, hemodynamic, functional, and molecular data all in one platform.",,,FALSE,https://www.visualsonics.com/product/imaging-systems/vevo-3100,platform,,,,Vectra_H1,Class,Assay,Platform,Platform,,,
-Cherry Imaging TRACE Platform,"(From vendor) Full skin 3D imaging platform designed for research; uses a handheld scanner to capture thousands of images from multiple angles, which can be analyzed to create precise skin morphology model with a 100 micron accuracy to assess treatment results over time.",,,FALSE,https://www.cherryimaging.com/home,platform,,,,Cherry_Imaging_TRACE,Class,Assay,Platform,Platform,,,
-Cherry Imaging FACE Platform,"(From vendor) A micro-ultrasound imaging system for anatomical, hemodynamic, functional, and molecular data all in one platform.",,,FALSE,https://www.cherryimaging.com/home,platform,,,,Cherry_Imaging_FACE,Class,Assay,Platform,Platform,,,
-LifeViz Micro System,"(From vendor) Portable 3D imaging system for skin microstructure analysis.",,,FALSE,https://www.quantificare.com/3d-photography-systems_old/lifeviz-micro/,platform,,,,LifeViz_Micro_System,Class,Assay,Platform,Platform,,,
-LifeViz Infinity System,"(From vendor) All-in-one 3D imaging system for face, body and breast.",,,FALSE,https://www.quantificare.com/3d-photography-systems_old/lifeviz-infinity/,platform,,,,LifeViz_Infinity_System,Class,Assay,Platform,Platform,,,
-Promega GloMax Discover,"(From vendor) Microplate reader with high-performance luminescence, fluorescence, UV-Visible absorbance, BRET and FRET, two-color filtered luminescence and kinetic measurement capabilities.",,,FALSE,https://www.promega.com/products/microplate-readers-fluorometers-luminometers/microplate-readers/glomax-discover-system/?catNum=GM3000,platform,,,,Promega_GloMax_Discover,Class,Assay,Platform,Platform,,,
-BGISEQ-500,"(From vendor) BGISEQ-500 is an industry leading high-throughput sequencing solution, powered by combinatorial Probe-Anchor Synthesis (cPAS) and improved DNA Nanoballs (DNB™) technology.",,,FALSE,https://www.bgi.com/wp-content/uploads/sites/4/2017/05/GLOBAL_BGISEQ-500_WholeGenomeSeq_ServiceOverview_04-17.pdf,platform,,,,BGISEQ_500,Class,Assay,Platform,Platform,,,
-Illumina HumanOmniExpress-24 v1.2 BeadChip,,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL31092,platform,,,,Illumina_HumanOmniExpress-24_1.2_BeadChip,Class,Assay,Platform,Platform,,,
-Illumina HumanOmniExpress-24 v1.0 BeadChip,,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL21168,platform,,,,Illumina_HumanOmniExpress-24_1.0_BeadChip,Class,Assay,Platform,Platform,,,
-Illumina Human660W-Quad v1.0 BeadChip,,,,FALSE,https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL8888,platform,,,,Illumina_Human660W-Quad_v1.0_BeadChip,Class,Assay,Platform,Platform,,,
-drugScreenType,String describing general class of drug screen,"singleMolecule, smallMoleculeLibraryScreen, combinationLibraryScreen, combinationScreen",,FALSE,,compoundScreen,,,,drugScreenType,Property,Assay,annotationProperty,,,,
-assay,The technology used to generate the data in this file,"HPLC,elevated plus maze test,open field test,rotarod performance test,mRNA counts,high content screen,immunocytochemistry,immunofluorescence,autoradiography,reporter gene assay,electrochemiluminescence,in vivo tumor growth,blood chemistry measurement,in vivo bioluminescence,immunohistochemistry,NOMe-seq,FIA-MSMS,ultra high-performance liquid chromatography/tandem mass spectrometry,high-performance liquid chromatography/tandem mass spectrometry,liquid chromatography-electrochemical detection,RNA-seq,miRNA-seq,liquid chromatography/tandem mass spectrometry,liquid chromatography/mass spectrometry,lncRNA-seq,whole exome sequencing,Sanger sequencing,ChIP-seq,RNA array,SNP array,methylation array,miRNA array,bisulfite sequencing,ATAC-seq,HI-C,ERR bisulfite sequencing,ISO-seq,western blot,whole genome sequencing,polymerase chain reaction,cell viability assay,2D Incucyte,2D CellTiter-Glo,3D microtissue viability,2D AlamarBlue fluorescence,2D AlamarBlue absorbance,in vivo PDX viability,atomic force microscopy,brightfield microscopy,traction force microscopy,phase-contrast microscopy,next generation targeted sequencing,MIB/MS,scCGI-seq,MudPIT,questionnaire,DNA optical mapping,oxBS-seq,ribo-seq,positron emission tomography,RPPA,ELISA,long term potentiation assay,local field potential recording,whole-cell patch clamp,sandwich ELISA,laser speckle imaging,genotyping,TMT quantitation,mass spectrometry,label free mass spectrometry,cell count,immunoassay,conventional MRI,functional MRI,magnetic resonance spectroscopy,FTIR spectroscopy,rheometry,gel filtration chromatography,differential scanning calorimetry,single molecule drug screen assay,small molecule library screen,combination library screen,combination screen,compound screen,array,single-cell RNA-seq,spatial transcriptomics,massively parallel reporter assay,Riccardi and Ablon scales,spatial frequency domain imaging,optical coherence tomography,CUT&RUN,3D imaging,high frequency ultrasound,dynamic light scattering,static light scattering,light scattering assay,flow cytometry,pattern electroretinogram,optokinetic reflex assay,SUSHI,3D confocal imaging,3D electron microscopy,cell competition,body size trait measurement,twin spot assay,perineurial cell thickness,survival,gait measurement,sorbitol dehydrogenase activity level assay,T cell receptor repertoire sequencing,cell proliferation,oxygen consumption assay,reactive oxygen species assay,ATPase activity assay,novelty response behavior assay,contextual conditioning behavior assay,active avoidance learning behavior assay,focus forming assay,blue native PAGE,in vitro tumorigenesis,Matrigel-based tumorigenesis assay,calcium retention capacity assay,quantitative PCR,photograph,cAMP-Glo Max Assay,Von Frey test,targeted exome sequencing,Child Behavior Checklist for Ages 1.5-5,Child Behavior Checklist for Ages 6-18, Social Responsiveness Scale,'Social Responsiveness Scale, Second Edition', NIH Toolbox",,TRUE,,experimentalData,,,,assayType,Property,Assay,annotationProperty,,Assay,one,
-platform,"A sequencing platform, microscope, spectroscope/plate reader, or other platform for collecting data.","Illumina HiSeq 3000, Illumina HiSeq 2500, Illumina HiSeq 4000, Illumina NextSeq 500, Illumina HiSeq 2000, Illumina MiSeq, Zeiss LSM 980, Affymetrix Genome-Wide Human SNP 5.0 Array, Affymetrix Genome-Wide Human SNP 6.0 Array, PacBio RS II, Illumina Genome Analyzer IIx, Illumina HumanOmni1-Quadv1.0, Illumina 1M, Illumina h650, Illumina Omni2pt5M, Illumina Omni5M, Illumina MouseWG-6 v2.0 expression beadchip, Perlegen 300Karray, Agilent 44Karray, Illumina WholeGenome DASL, Illumina HumanHap300, Nanostring Counter, LTQ Orbitrap XL, Illumina HumanMethylation450, Illumina Infinium MethylationEPIC BeadChip v1.0 (850k),Illumina Infinium MethylationEPIC BeadChip v2.0 (935k), Affymetrix U133AB, Affymetrix Human Gene 1.0 ST Array, Affymetrix Human Genome U133 Plus 2.0 Array, Illumina HiSeq X, Bionano Irys, Infinium HumanOmniExpressExome, Illumina NextSeq 550, Illumina NextSeq 1000, Illumina NextSeq 2000, PacBio Sequel IIe System, PacBio Sequel II System, Nanostring GeoMx, LI-COR Odyssey CLx, Spectramax M Series, Olympus DP80, Orbitrap Fusion Lumos Tribrid, Illumina NovaSeq 6000, Chromium X,EnVision 2103 Multiplate Reader,Vectra H1 3D Imaging System,Vevo 3100 Imaging System,10x Visium Spatial Gene Expression,Cherry Imaging TRACE Platform,Cherry Imaging FACE Platform,LifeViz Micro System,LifeViz Infinity System,BGISEQ-500,Illumina HumanOmniExpress-24 v1.2 BeadChip,Illumina HumanOmniExpress-24 v1.0 BeadChip,Illumina Human660W-Quad v1.0 BeadChip",,TRUE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=read_group&anchor=platform,experimentalData,,,,platform,Property,Assay,annotationProperty,,Platform,,
-targetCaptureKitID,"A unique identifier for the kit used to construct a genomic library using target capture-based techniques, which should be composed of the vendor name, kit name and kit version.",,,TRUE,http://purl.obolibrary.org/obo/NCIT_C177583,experimentalData,,,,targetCaptureKitID,Property,Assay,annotationProperty,,,,"For WES processing, the target BED used could be provided based on the target capture kit."
-libraryID,,,,TRUE,,experimentalData,,,,libraryID,Property,Assay,annotationProperty,,,,
-assayTarget,The HUGO gene symbol that represents the target analyte assayed.,,,FALSE,Sage Bionetworks,experimentalData,,,,assayTarget,Property,Assay,annotationProperty,,,,
-proteinExtractSource,Source of the extracted protein used in the experiment,"cell lysate, nuclei, mitochondria, cytoplasm",,TRUE,http://purl.obolibrary.org/obo/OBI_0000894,experimentalData,,,,proteinExtractSource,Property,Assay,annotationProperty,,,,
-reporterGene,"A biological material (clone, oligo, etc.) on an array which will report on some biosequence or biosequences.",,,FALSE,,experimentalData,,,,reporterGene,Property,Assay,annotationProperty,,,,
-reporterSubstance,A gene which produces an easily assayed phenotype. Often used for expression studies of heterologous promoters.,,,FALSE,,experimentalData,,,,reporterSubstance,Property,Assay,annotationProperty,,,,
-immunoAssayType,Type of immuno assay,"ChIP-seq, ATAC-seq",,TRUE,,immunoAssay,,,,immunoAssayType,Property,Assay,annotationProperty,,,,
-runType,Is the sequencing run single or paired end?,"singleEnd, pairedEnd","readPair,isStranded,readPairOrientation,readStrandOrigin,readLength,readDepth",FALSE,Sage Bionetworks,ngs,,,,runType,Property,Assay,annotationProperty,ngsParameter,Run_Type,,
-readPair,"The read of origin, use value 1 or 2",,,FALSE,,ngs,,,int::inRange 1 2 error,readPair,Property,Assay,annotationProperty,ngsParameter,Read_Pair,,
-isStranded,Whether or not the library is stranded (Yes; No),"Yes, No",,TRUE,,ngs,,,,isStranded,Property,Assay,annotationProperty,ngsParameter,,,
-readPairOrientation,The relative orientation of the reads in a paired-end protocol,"inward, outward, matching, fr-firststrand",,TRUE,,ngs,,,,readPairOrientation,Property,Assay,annotationProperty,ngsParameter,Read_Pair_Orientation,,
-readStrandOrigin,The strand from which the read originates in a strand-specific protocol,"forward, reverse",,FALSE,,ngs,,,,readStrandOrigin,Property,Assay,annotationProperty,ngsParameter,Read_Strand_Origin,,
-libraryPrep,The general strategy by which the library was prepared,"rRNAdepletion, polyAselection, lncRNAenrichment, miRNAenrichment","libraryPreparationMethod,nucleicAcidSource,dissociationMethod",FALSE,,ngs,,,,libraryPrep,Property,Assay,annotationProperty,ngsParameter,Library_Prep,,
-libraryPreparationMethod,Method by which library was prepared,"10x, CEL-seq, Drop-Seq, Smart-seq2, TruSeq, Smart-seq4, Omni-ATAC, NEBNext mRNA Library Prep Reagent Set for Illumina, IDT xGen Exome Research Panel, TruSeq standard total RNA library kit, Illumina TruSeq DNA Nano, KAPA HyperPrep Kit PCR-free,KAPA RNA HyperPrep Kit with RiboErase (HMR),GTAC@WUSTL in-house prep, KAPA mRNA HyperPrep Kit",,TRUE,,ngs,,,,libraryPreparationMethod,Property,Assay,annotationProperty,ngsParameter,Library_Preparation_Method,,
-nucleicAcidSource,Source of the extracted nucleic acid used in the experiment,"bulk cell, single cell, bulk nuclei, single nucleus, mitochondria",,FALSE,Sage Bionetworks,ngs,,,,nucleicAcidSource,Property,Assay,annotationProperty,ngsParameter,Nucleic_Acid_Source,,
-dissociationMethod,Procedure by which a biological specimen is dissociated into individual cells or a cell suspension,"10x_v2, FACS, Fluidigm C1, drop-seq, inDrop, mouth pipette, bulk, enzymatic, mechanical, none",,FALSE,https://www.ebi.ac.uk/ols/ontologies/efo/terms?iri=http%3A%2F%2Fwww.ebi.ac.uk%2Fefo%2FEFO_0009088,ngs,,,,dissociationMethod,Property,Assay,annotationProperty,ngsParameter,Dissociation_Method,,
-readLength,Number of base pairs (bp) sequenced for a read,,,TRUE,,ngs,,,,readLength,DataProperty,Assay,annotationProperty,ngsParameter,,,
-readDepth,"If available, the coverage statistic as output from bedtools coverage or samtools stats.",,,FALSE,Sage Bionetworks,ngs,,,,readDepth,DataProperty,Assay,annotationProperty,ngsParameter,,,
-isPairedEnd,(Legacy/deprecated annotation) Whether or not is paired-end sequencing (Yes; No). Note that this can be inferred as 'Yes' when runType=pairedEnd; current templates actually use runType to capture this info.,"Yes, No",,FALSE,,ngs,,,,isPairedEnd,DataProperty,Assay,annotationProperty,ngsParameter,,,
-totalReads,"If available, the total number of reads collected from samtools.",,,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads&anchor=total_reads,ngs,,,,totalReads,DataProperty,Assay,annotationProperty,ngsParameter,,,
-targetDepth,"The targeted read depth prior to sequencing.",,,FALSE,https://data.humantumoratlas.org/standards/bulkrnaseq#TargetDepth,ngs,,,,targetDepth,DataProperty,Assay,annotationProperty,ngsParameter,,,
-raw counts,The number or amount of something.,,assay,FALSE,http://purl.obolibrary.org/obo/NCIT_C25463,dataType,,,,Raw_Counts,Class,Data,Data_Class,,,,
-Volume,The amount of three dimensional space occupied by an object or the capacity of a space or container.,,assay,FALSE,http://purl.obolibrary.org/obo/NCIT_C25335,dataType,,,,Volume,Class,Data,Data_Class,,,,
-Weight,The vertical force exerted by a mass as a result of gravity.,,assay,FALSE,http://purl.obolibrary.org/obo/NCIT_C25208,dataType,,,,Weight,Class,Data,Data_Class,,,,
-Pharmacokinetic Study,"A study of the process by which a drug is absorbed, distributed, metabolized, and eliminated by the body.",,assay,FALSE,http://purl.obolibrary.org/obo/NCIT_C49663,dataType,,,,Pharmacokinetic_Study,Class,Data,Data_Class,,,,
-genomicVariants,"Genomic alterations, including single nucleotide polymorphisms, short indels and structural variants. Use more specific term if possible, esp. if data is only of one specific subset.",,assay,FALSE,https://www.ebi.ac.uk/ols/ontologies/edam/terms?iri=http%3A%2F%2Fedamontology.org%2Foperation_3227,dataType,,,,Genomic_Variants,Class,Data,Data_Class,,,,
-AlignedReads,Aligned reads output from alignment workflows,,assay,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads,dataType,,,,Aligned_Reads,Class,Data,Data_Class,,,,
-SomaticVariants,Called somatic variants,,assay,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=simple_somatic_mutation,dataType,,,,Somatic_Variants,Class,Data,Data_Class,,,,
-AnnotatedSomaticVariants,Somatic variants annotated with some annotation workflow,,assay,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=annotated_somatic_mutation,dataType,,,,Annotated_Somatic_Variants,Class,Data,Data_Class,,,,
-GermlineVariants,Called germline variants,,assay,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=simple_germline_variation,dataType,,,,Germline_Variants,Class,Data,Data_Class,,,,
-AnnotatedGermlineVariants,Germline variants annotated with some annotation workflow,,assay,FALSE,,dataType,,,,Annotated_Germline_Variants,Class,Data,Data_Class,,,,
-StructuralVariants,"Specifically genomic variants data classified as structural variants, which may be derived from specialized variant calling workflows",,assay,FALSE,,dataType,,,,Structural_Variants,Class,Data,Data_Class,,,,
-behavior process,"The action, reaction, or performance of an organism in response to external or internal stimuli.",,assay,FALSE,hhttps://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=structural_variation,dataType,,,,Behavior_Process,Class,Data,Data_Class,,,,
-metabolomics,"The systematic study of metabolites, the chemical processes they are involved, and the chemical fingerprints of specific cellular processes in a whole cell, tissue, organ or organism.",,assay,FALSE,http://edamontology.org/topic_3172,dataType,,,,Metabolomics,Class,Data,Data_Class,,,,
-image,Biological or biomedical data that has been rendered into an image.,,assay,FALSE,https://www.ebi.ac.uk/ols/ontologies/edam/terms?iri=http%3A%2F%2Fedamontology.org%2Fdata_2968,dataType,,,,Image,Class,Data,Data_Class,,,,
-geneExpression,The analysis of levels and patterns of synthesis of gene products (proteins and functional RNA) including interpretation in functional terms of gene expression data.,,assay,FALSE,https://www.ebi.ac.uk/ols/ontologies/edam/terms?iri=http%3A%2F%2Fedamontology.org%2Ftopic_0203,dataType,,,,Gene_Expression,Class,Data,Data_Class,,,,
-isoformExpression,Expression of protien isoforms formed from alternative splicings or other post-translational modifications of a single gene through RNA splicing mechanisms.,,assay,FALSE,https://en.wikipedia.org/wiki/Protein_isoform,dataType,,,,Isoform_Expression,Class,Data,Data_Class,,,,
-proteomics,"Protein and peptide identification, especially in the study of whole proteomes of organisms.",,assay,FALSE,https://www.ebi.ac.uk/ols/ontologies/edam/terms?iri=http%3A%2F%2Fedamontology.org%2Ftopic_0121,dataType,,,,Proteomics,Class,Data,Data_Class,,,,
-particle characterization,"A series of analytical methods that provide information about entities such as composition, structure and defects. ",,assay,FALSE,https://ontobee.org/ontology/NCIT?iri=http://purl.obolibrary.org/obo/NCIT_C62317,dataType,,,,Particle_Characterization,Class,Data,Data_Class,,,,
-kinomics,Kinomics is the study of protein kinases and protein kinase signaling.,,assay,FALSE,http://www.kinomecore.com/what-is-kinomics/,dataType,,,,Kinomics,Class,Data,Data_Class,,,,
-drugScreen,Information on drug sensitivity and molecular markers of drug response,,assay,FALSE,https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531057/,dataType,,,,Drug_Screen,Class,Data,Data_Class,,,,
-drugCombinationScreen,Information on drug sensitivity of more than one compound,,,FALSE,https://www.ncbi.nlm.nih.gov/pubmed/29344898,dataType,,,,Drug_Combination_Screen,Class,Data,Data_Class,,,,
-cellularPhysiology,,,assay,FALSE,,dataType,,,,Cellular_Physiology,Class,Data,Data_Class,,,,
-chromatinActivity,Chromatin activity that allow access of condensed genomic DNA and potentially control gene expression.,,,FALSE,https://en.wikipedia.org/wiki/Chromatin_remodeling,dataType,,,,Chromatin_Activity,Class,Data,Data_Class,,,,
-surveyData,A data set that contains the outcome of a survey.,,assay,FALSE,http://purl.obolibrary.org/obo/OMIABIS_0000060,dataType,,,,Survey_Data,Class,Data,Data_Class,,,,
-network,An interconnected system of things or people.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C61377,dataType,,,,Network,Class,Data,Data_Class,,,,
-clinical,Data obtained through patient examination or treatment.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C15783,dataType,,,,Clinical_Data,Class,Data,Data_Class,,,,
-immunoassay,Laboratory test involving interaction of antigens with specific antibodies.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C16723,dataType,,,,,,Data,Data_Class,,,,
-electrophysiology,Data generated from an electrophysiology assay.,,,FALSE,http://purl.obolibrary.org/obo/ERO_0000564,dataType,,,,Electrophysiology,Class,Data,Data_Class,,,,
-mask image,"Image used as the mask for an image processing operation, such as subtraction.",,,FALSE,http://dicom.nema.org/resources/ontology/DCM/121321,dataType,,,,Mask_Image,Class,Data,Data_Class,,,,
-curatedData,"Any file derived from or pertaining a manually or programatically curated data resource. Examples include: reference sequences, drug information databases, identifier maps""""",,,FALSE,,,,,,Curated_Data,Class,Data,Data_Class,,,,
-characteristic,"Broad data type for measures that can encompass volume, weight, brightness, color, capacity, etc.",,assay,FALSE,http://purl.obolibrary.org/obo/NCIT_C25447,dataType,,,,characteristic,Class,Data,Data_Class,,,,
-normalized,A data set that is produced as the output of a normalization data transformation.,"","",FALSE,http://purl.obolibrary.org/obo/OBI_0000451,dataSubtype,,"","",Normalized,Class,Data,Data_Level,"","","",""
-dataMatrix,A file of data containing multiple values for multiple samples.,"","",FALSE,"",dataSubtype,,"","",Data_Matrix,Class,Data,Data_Level,"","","",""
-raw,"A data file produced by an instrument, or one with very little subsequent processing.","","",FALSE,"",dataSubtype,,"","",Raw,Class,Data,Data_Level,"","","",""
-processed,A file of data generated from running one or more bioinformatics methods on a raw file.,"","",FALSE,"",dataSubtype,,"","",Processed,Class,Data,Data_Level,"","","",""
-metadata,"A file of clinical, technical, or other parameters that describe a dataset.","","",FALSE,"",dataSubtype,,"","",Metadata,Class,Data,Data_Level,"","","",""
-representative,"An activity that stands as an equivalent of something or results in an equivalent; typical of, or the same as, others in a larger group of people or things.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C67045,dataSubtype,,"","",Representative,Class,Data,Data_Level,"","","",""
-bash script,Bash Shell Script,"","",FALSE,https://en.wikipedia.org/wiki/Shell_script,fileFormat,,"","",bash_script,Class,Data,File_Format,Open_Format,"","",""
-bedgraph,Holds a tab-delimited chromosome /start /end / datavalue dataset. The bedGraph format allows display of continuous-valued data in track format. This display type is useful for probability scores and transcriptome data,"","",FALSE,http://edamontology.org/format_3583,fileFormat,,"","",bedgraph,Class,Data,File_Format,Open_Format,"","",""
-ai,Adobe Illustrator format,"","",FALSE,http://www.ebi.ac.uk/swo/data/SWO_3000023,fileFormat,,"","",ai,Class,Data,File_Format,Proprietary_Format,"","",""
-idx,"","","",FALSE,"",fileFormat,,"","",idx,Class,Data,File_Format,"","","",""
-idat,Proprietary file format for (raw) BeadArray data used by genomewide profiling platforms from Illumina Inc. This format is output directly from the scanner and stores summary intensities for each probe-type on an array.,"","",FALSE,http://edamontology.org/format_3578,fileFormat,,"","",idat,Class,Data,File_Format,Proprietary_Format,"","",""
-bam,"BAM format, the binary, BGZF-formatted compressed version of SAM format for alignment of nucleotide sequences (e.g. sequencing reads) to (a) reference sequence(s)","","",FALSE,http://edamontology.org/format_2572,fileFormat,,"","",bam,Class,Data,File_Format,Open_Format,"","",""
-bai,BAM indexing format,"","",FALSE,http://edamontology.org/format_3327,fileFormat,,"","",bai,Class,Data,File_Format,Open_Format,"","",""
-excel,Microsoft Excel spreadsheet format,"","",FALSE,"",fileFormat,,"","",excel,Class,Data,File_Format,Proprietary_Format,"","",""
-powerpoint,Microsoft Powerpoint slide format,"","",FALSE,"",fileFormat,,"","",powerpoint,Class,Data,File_Format,Proprietary_Format,"","",""
-tif,"Tagged Image File Format, abbreviated TIFF or TIF, is a computer file format for storing raster graphics images","","",FALSE,https://en.wikipedia.org/wiki/TIFF,fileFormat,,"","",tif,Class,Data,File_Format,Preferred_Open_Format,"","",""
-png,PNG is a file format for image compression,"","",FALSE,http://edamontology.org/format_3603,fileFormat,,"","",png,Class,Data,File_Format,Open_Format,"","",""
-doc,Microsoft Word document format,"","",FALSE,"",fileFormat,,"","",doc,Class,Data,File_Format,Proprietary_Format,"","",""
-pdf,Portable Document Format,"","",FALSE,http://edamontology.org/format_3508,fileFormat,,"","",pdf,Class,Data,File_Format,Proprietary_Format,"","",""
-hdf5,"HDF5 is the new version, according to the HDF group, a completely different technology (https://support.hdfgroup.org/products/hdf4/ compared to HDF. An HDF5 file appears to the user as a directed graph. The nodes of this graph are the higher-level HDF5 objects that are exposed by the HDF5 APIs: Groups, Datasets, Named datatypes. Currently supported by the Python MDTraj package. HDF5 is a data model, library, and file format for storing and managing data, based on Hierarchical Data Format (HDF).","","",FALSE,http://edamontology.org/format_3590,fileFormat,,"","",HDF5,Class,Data,File_Format,Open_Format,"","",""
-fasta,"FASTA format is a text-based format for representing either nucleotide sequences or peptide sequences, in which nucleotides or amino acids are represented using single-letter codes","","",FALSE,https://en.wikipedia.org/wiki/FASTA_format,fileFormat,,"","",fasta,Class,Data,File_Format,Preferred_Open_Format,"","",""
-fastq,FASTQ format is a text-based format for storing both a biological sequence (usually nucleotide sequence) and its corresponding quality scores. Both the sequence letter and quality score are each encoded with a single ASCII character for brevity,"","",FALSE,https://en.wikipedia.org/wiki/FASTQ_format,fileFormat,,"","",fastq,Class,Data,File_Format,Preferred_Open_Format,"","",""
-sam,Sequence Alignment/Map (SAM) format for alignment of nucleotide sequences (e.g. sequencing reads) to (a) reference sequence(s),"","",FALSE,http://edamontology.org/format_2573,fileFormat,,"","",sam,Class,Data,File_Format,Open_Format,"","",""
-vcf,"Variant Call Format (VCF) for sequence variation (indels, polymorphisms, structural variation)","","",FALSE,http://edamontology.org/format_3016,fileFormat,,"","",vcf,Class,Data,File_Format,Open_Format,"","",""
-bcf,"BCF, the binary version of Variant Call Format (VCF) for sequence variation (indels, polymorphisms, structural variation)","","",FALSE,http://edamontology.org/format_3016,fileFormat,,"","",bcf,Class,Data,File_Format,Open_Format,"","",""
-maf,"Multiple Alignment Format (MAF) supporting alignments of whole genomes with rearrangements, directions, multiple pieces to the alignment, and so forth","","",FALSE,http://edamontology.org/format_3008,fileFormat,,"","",maf,Class,Data,File_Format,Open_Format,"","",""
-bed,"Browser Extensible Data (BED) format of sequence annotation track, typically to be displayed in a genome browser","","",FALSE,http://edamontology.org/format_3003,fileFormat,,"","",bed,Class,Data,File_Format,Open_Format,"","",""
-chp,CHP file contains probe set analysis results generated from Affymetrix software,"","",FALSE,"",fileFormat,,"","",chp,Class,Data,File_Format,Proprietary_Format,"","",""
-cel,Format of Affymetrix data file of information about (raw) expression levels of the individual probes,"","",FALSE,http://edamontology.org/format_1638,fileFormat,,"","",cel,Class,Data,File_Format,Proprietary_Format,"","",""
-sif,SIF (simple interaction file) Format - a network/pathway format used for instance in cytoscape,"","",FALSE,http://edamontology.org/format_3619,fileFormat,,"","",sif,Class,Data,File_Format,"","","",""
-tsv,Tabular data represented as tab-separated values in a text file,"","",FALSE,http://edamontology.org/format_3475,fileFormat,,"","",tsv,Class,Data,File_Format,Preferred_Open_Format,"","",""
-csv,Tabular data represented as comma-separated values in a text file,"","",FALSE,http://edamontology.org/format_3752,fileFormat,,"","",csv,Class,Data,File_Format,Preferred_Open_Format,"","",""
-txt,Textual format,"","",FALSE,http://edamontology.org/format_2330,fileFormat,,"","",txt,Class,Data,File_Format,Preferred_Open_Format,"","",""
-plink,Any Plink file format (MAP/PED/BED/BIM/FAM),"","",FALSE,https://www.cog-genomics.org/plink2/formats,fileFormat,,"","",plink,Class,Data,File_Format,Open_Format,"","",""
-bigwig,bigWig format for large sequence annotation tracks that consist of a value for each sequence position,"","",FALSE,http://edamontology.org/format_3006,fileFormat,,"","",bigwig,Class,Data,File_Format,Open_Format,"","",""
-wiggle,Wiggle format (WIG) of a sequence annotation track that consists of a value for each sequence position,"","",FALSE,http://edamontology.org/format_3005,fileFormat,,"","",wiggle,Class,Data,File_Format,Open_Format,"","",""
-gct,"Tab-delimited text files of GenePattern that contain a column for each sample, a row for each gene, and an expression value for each gene in each sample","","",FALSE,http://edamontology.org/format_3709,fileFormat,,"","",gct,Class,Data,File_Format,"","","",""
-bgzip,Blocked GNU Zip format,"","",FALSE,http://edamontology.org/format_3615,fileFormat,,"","",bgzip,Class,Data,File_Format,Open_Format,"","",""
-zip,zip is a format standard of a digital entity that is conformant with the PKWARE .ZIP file format specification,"","",FALSE,http://purl.obolibrary.org/obo/OBI_0000325,fileFormat,,"","",zip,Class,Data,File_Format,Open_Format,"","",""
-seg,SEG file (segmented data; .seg or .cbs) is a tab-delimited text file that lists loci and associated numeric values,"","",FALSE,https://software.broadinstitute.org/software/igv/SEG,fileFormat,,"","",seg,Class,Data,File_Format,Open_Format,"","",""
-html,HTML format,"","",FALSE,http://edamontology.org/format_2331,fileFormat,,"","",html,Class,Data,File_Format,"","","",""
-mov,A video file format with the .mov extension,"","",FALSE,Sage Bioenetworks,fileFormat,,"","",mov,Class,Data,File_Format,"","","",""
-hyperlink,"A reference (link) from some point in one hypertext document to another document, another place in the same document, or a website.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C47919,fileFormat,,"","",hyperlink,Class,Data,File_Format,"","","",""
-svs,"A single-file pyramidal tiled TIFF, with non-standard metadata and compression.","","",FALSE,https://openslide.org/formats/aperio/,fileFormat,,"","",svs,Class,Data,File_Format,"","","",""
-md,Markdown (MD) is a lightweight markup language with plain text formatting syntax,"","",FALSE,https://en.wikipedia.org/wiki/Markdown,fileFormat,,"","",md,Class,Data,File_Format,"","","",""
-flagstat,Output of samtools flagstat tool,"","",FALSE,"",fileFormat,,"","",flagstat,Class,Data,File_Format,"","","",""
-gtf,Gene transfer format (GTF) is a file format used to hold information about gene structure,"","",FALSE,https://en.wikipedia.org/wiki/Gene_transfer_format,fileFormat,,"","",gtf,Class,Data,File_Format,"","","",""
-raw,Proprietary file format for mass spectrometry data from Thermo Scientific,"","",FALSE,http://edamontology.org/format_3712,fileFormat,,"","",raw,Class,Data,File_Format,"","","",""
-msf,Proprietary mass-spectrometry format of Thermo Scientific's ProteomeDiscoverer software,"","",FALSE,http://edamontology.org/format_3702,fileFormat,,"","",msf,Class,Data,File_Format,"","","",""
-rmd,markdown document specific to r analyses,"","",FALSE,http://rmarkdown.rstudio.com/developer_document_templates.html,fileFormat,,"","",rmd,Class,Data,File_Format,"","","",""
-bed narrowPeak,"This format is used to provide called peaks of signal enrichment based on pooled, normalized (interpreted) data. It is a BED6+4 format.","","",FALSE,http://genome.ucsc.edu/FAQ/FAQformat.html#format12,fileFormat,,"","",bed_narrowPeak,Class,Data,File_Format,"","","",""
-bed broadPeak,"This format is used to provide called regions of signal enrichment based on pooled, normalized (interpreted) data. It is a BED 6+3 format.","","",FALSE,http://genome.ucsc.edu/FAQ/FAQformat.html#format13,fileFormat,,"","",bed_broadPeak,Class,Data,File_Format,"","","",""
-bed gappedPeak,"This format is used to provide called regions of signal enrichment based on pooled, normalized (interpreted) data where the regions may be spliced or incorporate gaps in the genomic sequence. It is a BED12+3 format.","","",FALSE,http://genome.ucsc.edu/FAQ/FAQformat.html#format14,fileFormat,,"","",bed_gappedPeak,Class,Data,File_Format,"","","",""
-avi,AVI files can contain both audio and video data in a file container that allows synchronous audio-with-video playback.,"","",FALSE,https://en.wikipedia.org/wiki/Audio_Video_Interleave,fileFormat,,"","",avi,Class,Data,File_Format,"","","",""
-pzfx,"A PZFX file is a Prism project created by GraphPad Prism, a scientific application used to analyze and graph data. It contains project data including graphs and layouts, notes, and tables.","","",FALSE,https://fileinfo.com/extension/pzfx,fileFormat,,"","",pzfx,Class,Data,File_Format,"","","",""
-fig,"Line drawing saved in the Xfig format; stored as a vector image that may include lines, shapes, arcs, splines, arrows, and text objects; may also include images, colors, and patterns.","","",FALSE,https://fileinfo.com/extension/fig,fileFormat,,"","",fig,Class,Data,File_Format,"","","",""
-xml,eXtensible Markup Language (XML) format.,"","",FALSE,http://edamontology.org/format_2332,fileFormat,,"","",xml,Class,Data,File_Format,Preferred_Open_Format,"","",""
-tar,tape archive,"","",FALSE,https://en.wikipedia.org/wiki/Tar_(computing),fileFormat,,"","",tar,Class,Data,File_Format,"","","",""
-R script,R script with expected extension “.R”.,"","",FALSE,Sage Bionetworks,fileFormat,,"","",R_script,Class,Data,File_Format,"","","",""
-abf,The Axon Binary File format (ABF) was created for the storage of binary experimental data.,"","",FALSE,https://mdc.custhelp.com/euf/assets/content/ABFHelp.pdf,fileFormat,,"","",abf,Class,Data,File_Format,"","","",""
-bpm,A beaded pool manifest. Describe the SNP or probe content on a BeadChip or in an assay pool.,"","",FALSE,https://support.illumina.com/datafiles.html,fileFormat,,"","",bpm,Class,Data,File_Format,"","","",""
-dat,Format of Affymetrix data file of raw image data.,"","",FALSE,http://edamontology.org/format_1637,fileFormat,,"","",dat,Class,Data,File_Format,"","","",""
-jpg,Joint Picture Group file format for lossy graphics file.,"","",FALSE,http://edamontology.org/format_3579,fileFormat,,"","",jpg,Class,Data,File_Format,"","","",""
-locs,Illumina iScan bead location file.,"","",FALSE,https://support.illumina.com/content/dam/illumina-support/documents/documentation/system_documentation/iscan/iscan-system-guide-11313539-01.pdf,fileFormat,,"","",locs,Class,Data,File_Format,"","","",""
-Sentrix descriptor file,A BeadScan specific file needed to perform scan setting checks for different array formats and assay type.,"","",FALSE,https://support.illumina.com/content/dam/illumina-support/documents/myillumina/dd0aff11-2664-481b-a8ce-26831a907cae/beadscan_3.0_software_addendum.pdf,fileFormat,,"","",Sentrix_descriptor_file,Class,Data,File_Format,"","","",""
-Python script,Python script with expected extension “.py”.,"","",FALSE,Sage Bionetworks,fileFormat,,"","",Python_script,Class,Data,File_Format,"","","",""
-MATLAB script,A MATLAB script file with expected extension “.m”. Note that files with a “.mat” extension contains MATLAB formatted data.,"","",FALSE,Sage Bionetworks,fileFormat,,"","",MATLAB_script,Class,Data,File_Format,"","","",""
-MATLAB data,A MATLAB formatted data file with expected extension “.mat”.,"","",FALSE,Sage Bionetworks,fileFormat,,"","",MATLAB_data,Class,Data,File_Format,"","","",""
-sav,"The SPSS Statistics File Format is a proprietary binary format, developed and maintained as the native format for the SPSS statistical software application.","","",FALSE,https://www.loc.gov/preservation/digital/formats/fdd/fdd000469.shtml,fileFormat,,"","",sav,Class,Data,File_Format,"","","",""
-gzip,GZipped format,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C80220,fileFormat,,"","",gzip,Class,Data,File_Format,"","","",""
-sdf,SDF is one of a family of chemical-data file formats developed by MDL Information Systems; it is intended especially for structural information.,"","",FALSE,http://edamontology.org/format_3814,fileFormat,,"","",sdf,Class,Data,File_Format,"","","",""
-RData,"The RData format (usually with extension .rdata or .rda) is a format designed for use with R, a system for statistical computation and related graphics, for storing a complete R workspace or selected 'objects' from a workspace in a form that can be loaded back by R.","","",FALSE,https://www.loc.gov/preservation/digital/formats/fdd/fdd000470.shtml,fileFormat,,"","",RData,Class,Data,File_Format,"","","",""
-hic,Hi-C contact matrix file,"","",FALSE,https://github.com/theaidenlab/juicer/wiki/Data,fileFormat,,"","",hic,Class,Data,File_Format,"","","",""
-ab1,TAB1 binary format of raw DNA sequence reads (output of Applied Biosystems' sequencing analysis software). Contains an electropherogram and the DNA base sequence.,"","",FALSE,http://edamontology.org/format_3000,fileFormat,,"","",ab1,Class,Data,File_Format,"","","",""
-7z,"A compressed archive file format that supports several different data compression, encryption and pre-processing filters.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C80224,fileFormat,,"","",7z,Class,Data,File_Format,"","","",""
-gff3,Generic Feature Format version 3 (GFF3) of sequence features.,"","",FALSE,http://edamontology.org/format_1975,fileFormat,,"","",gff3,Class,Data,File_Format,"","","",""
-json,"JavaScript Object Notation format; a lightweight, text-based format to represent tree-structured data using key-value pairs.","","",FALSE,http://edamontology.org/format_3464,fileFormat,,"","",json,Class,Data,File_Format,"","","",""
-sqlite,Data format used by the SQLite database.,"","",FALSE,http://edamontology.org/format_3621,fileFormat,,"","",sqlite,Class,Data,File_Format,"","","",""
-svg,Scalable Vector Graphics (SVG) is an XML-based vector image format for two-dimensional graphics with support for interactivity and animation.,"","",FALSE,http://edamontology.org/format_3604,fileFormat,,"","",svg,Class,Data,File_Format,"","","",""
-sra,SRA archive format (SRA) is the archive format used for input to the NCBI Sequence Read Archive.,"","",FALSE,http://edamontology.org/format_3698,fileFormat,,"","",sra,Class,Data,File_Format,"","","",""
-recal,.recal file from GATK VQSR,"","",FALSE,https://software.broadinstitute.org/gatk/documentation/tooldocs/3.8-0/org_broadinstitute_gatk_tools_walkers_variantrecalibration_VariantRecalibrator.php#--recal_file,fileFormat,,"","",recal,Class,Data,File_Format,"","","",""
-tranches,.tranches file from GATK VQSR,"","",FALSE,https://software.broadinstitute.org/gatk/documentation/tooldocs/3.8-0/org_broadinstitute_gatk_tools_walkers_variantrecalibration_VariantRecalibrator.php#--tranches_file,fileFormat,,"","",tranches,Class,Data,File_Format,"","","",""
-mtx,Matrix Market Exchange Format,"","",FALSE,https://math.nist.gov/MatrixMarket/formats.html#MMformat,fileFormat,,"","",mtx,Class,Data,File_Format,"","","",""
-tagAlign,Tag Alignment provides genomic mapping of short sequence tags.,"","",FALSE,https://genome.ucsc.edu/FAQ/FAQformat.html#format15,fileFormat,,"","",tagAlign,Class,Data,File_Format,"","","",""
-dup,output of the Picard MarkDuplicates tool.,"","",FALSE,https://software.broadinstitute.org/gatk/documentation/tooldocs/4.0.4.0/picard_sam_markduplicates_MarkDuplicates.php,fileFormat,,"","",dup,Class,Data,File_Format,"","","",""
-DICOM,"A comprehensive set of standards for communications between medical imaging devices, including handling, storing and transmitting information in medical imaging. It includes a file format definition and a network communication protocol.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C49059,fileFormat,,"","",DICOM,Class,Data,File_Format,"","","",""
-czi,"microscopy imaging file format that saves multidimensional images such as time lapse, Z-stacks, multiposition experiments and virtual slides, combined with relevant meta information","","",FALSE,https://www.zeiss.com/microscopy/int/products/microscope-software/zen/czi.html,fileFormat,,"","",czi,Class,Data,File_Format,"","","",""
-mzML,"mzML format for raw spectrometer output data, standardised by HUPO PSI MSS.","","",FALSE,http://edamontology.org/format_3244,fileFormat,,"","",mzML,Class,Data,File_Format,Preferred_Open_Format,"","",""
-SPAR,Phillips MRS Header File,"","",FALSE,https://github.com/chenkonturek/MRS_MRI_libs,fileFormat,,"","",SPAR,Class,Data,File_Format,"","","",""
-SDAT,Phillips MRS Data File,"","",FALSE,https://github.com/chenkonturek/MRS_MRI_libs,fileFormat,,"","",SDAT,Class,Data,File_Format,"","","",""
-nii,"NIfTI-1 can store image data from any modality such as PET, MRI, CT, EEG that produces regularly sampled 1-5D rasters.","","",FALSE,https://nifti.nimh.nih.gov/nifti-1/documentation/faq,fileFormat,,"","",nii,Class,Data,File_Format,"","","",""
-PAR,This is yet another MRI image format generated by Philips scanners. It is an ASCII header (PAR) plus a binary blob (REC).,"","",FALSE,https://nipy.org/nibabel/reference/nibabel.parrec.html,fileFormat,,"","",PAR,Class,Data,File_Format,"","","",""
-REC,This is yet another MRI image format generated by Philips scanners. It is an ASCII header (PAR) plus a binary blob (REC).,"","",FALSE,https://nipy.org/nibabel/reference/nibabel.parrec.html,fileFormat,,"","",REC,Class,Data,File_Format,"","","",""
-hdr,"MRI Header file, as in the NIFTI-1 Analyze 7.5 format","","",FALSE,https://nifti.nimh.nih.gov/pub/dist/src/niftilib/nifti1.h,fileFormat,,"","",hdr,Class,Data,File_Format,"","","",""
-img,"MRI Data file, as in the NIFTI-1 Analyze 7.5 format","","",FALSE,https://nifti.nimh.nih.gov/pub/dist/src/niftilib/nifti1.h,fileFormat,,"","",img,Class,Data,File_Format,"","","",""
-sf,"Salmon’s main output is its quantification file. This file is a plain-text, tab-separated file with a single header line (which names all of the columns).","","",FALSE,https://salmon.readthedocs.io/en/latest/file_formats.html,fileFormat,,"","",sf,Class,Data,File_Format,"","","",""
-tom,"The .tom format is a specialized 3D image export format from the Vectra medical imaging systems that can optionally preserve trimmings and/or landmarks.","","",FALSE,http://canfieldupgrade.com/assets/media/VECTRA-M3-User-Guide.pdf,fileFormat,,"","",tom,Class,Data,File_Format,"","","",""
-fcs,"Format standard of a digital entity that is conformant with the Flow Cytometry Data File Standard",,,FALSE,http://purl.obolibrary.org/obo/OBI_0000327,fileFormat,,"","",fcs,Class,Data,File_Format,"","","",""
-NWB,"Neurodata Without Borders (NWB) is a data standard for neurophysiology data, designed to store data including from intracellular and extracellular electrophysiology experiments, data from optical physiology experiments, and tracking and stimulus data.","","",FALSE,https://www.nwb.org/,fileFormat,,"","",NWB,Class,Data,File_Format,"","","",""
-ome-tiff,"OME-TIFF is a preferred open image format","","",FALSE,http://edamontology.org/format_3727,fileFormat,,"","",OME-TIFF,Class,Data,File_Format,"","","",""
-docker image,"A Docker image is a file, comprised of multiple layers, that is used to execute code in a Docker container. An image is essentially built from the instructions for a complete and executable version of an application, which relies on the host OS kernel.","","",FALSE,http://edamontology.org/format_3973,fileFormat,,"","",docker_image,Class,Data,File_Format,"","","",""
-gene symbol,A unique gene name approved by an organism specific nomenclature committee.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C43568,curatedDataType,,,,Gene_Symbol,Class,Data,Metadata,,,,
-clinical data,Data obtained through patient examination or treatment.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C15783,curatedDataType,,,,Clinical_Curated_Data,Class,Data,Metadata,,,,
-gene function,A term that expresses the function of a gene product.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C48933,curatedDataType,,,,Gene_Function,Class,Data,Metadata,,,,
-chemical descriptor,"A chemical descriptor is a data item (quantity or value) about a chemical entity that conforms to a specification for how it is calculated, measured or recorded.",,,FALSE,http://semanticscience.org/resource/CHEMINF_000123,curatedDataType,,,,Chemical_Descriptor,Class,Data,Metadata,,,,
-individual,Metadata describing properties of individuals (human or animal) represented in the study.,,,FALSE,Sage Bionetworks,metadataType,,,,Individual_Annotation,Class,Data,Metadata,,,,
-biospecimen,Metadata describing properties of specimens collected and/or analyzed in the study.,,,FALSE,Sage Bionetworks,metadataType,,,,Biospecimen_Annotation,Class,Data,Metadata,,,,
-assay,Metadata describing properties of an assay conducted in the study.,,,FALSE,Sage Bionetworks,metadataType,,,,Assay_Annotation,Class,Data,Metadata,,,,
-data dictionary,Metadata describing terms or variables that appear in another file.,,,FALSE,Sage Bionetworks,metadataType,,,,Data_Dictionary,Class,Data,Metadata,,,,
-manifest,Metadata describing a list of files and the annotations terms associated with them.,,,FALSE,Sage Bionetworks,metadataType,,,,Manifest,Class,Data,Metadata,,,,
-protocol,"A plan specification which has sufficient level of detail and quantitative information to communicate it between investigation agents, so that different investigation agents will reliably be able to independently reproduce the process.",,,FALSE,http://purl.obolibrary.org/obo/OBI_0000272,metadataType,,,,Protocol,Class,Data,Metadata,,,,
-GRCh38,Genome Reference Consortium Human Build 38,,,FALSE,https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.26,referenceSet,,,,GRCh38,Class,Data,Metadata,,,,
-GRCh37,Genome Reference Consortium Human Build 37,,,FALSE,https://www.ncbi.nlm.nih.gov/assembly/GCF_000001405.13/,referenceSet,,,,GRCh37,Class,Data,Metadata,,,,
-MMUL1.0,Ensembl preliminary assembly Macaca mulatta,,,FALSE,https://jul2016.archive.ensembl.org/Macaca_mulatta/Info/Index,referenceSet,,,,MMUL1.0,Class,Data,Metadata,,,,
-HRC,Human haplotype reference panel,,,FALSE,http://www.haplotype-reference-consortium.org,referenceSet,,,,HRC,Class,Data,Metadata,,,,
-experimentalData,"Any file derived from or pertaining to a scientific experiment. experimentalData annotations should be applied, possibly disease-related",,,FALSE,Sage Bionetworks,resourceType,,,,Experimental_Data,Class,Data,Metadata,Resource,,,
-result,"Any file that reports data results. Examples include figures, presentations, analysis, etc.",,,FALSE,Sage Bionetworks,resourceType,,,,Result,Class,Data,Metadata,Resource,,,
-tool,"Any file or link that represents a tool, model, or algorithm; the tool annotations could be applied",,,FALSE,Sage Bionetworks,resourceType,,,,Tool,Class,Data,Metadata,Resource,,,
-workflow report,"Workflow-generated reports of analysis of primary data, usually created programmatically at completion of workflow step.",,,FALSE,,resourceType,,,,Workflow_Report,Class,Data,Metadata,Report,,,
-report,"a document assembled by an author for the purpose of providing information for the audience. A report is the output of a documenting process and has the objective to be consumed by a specific audience. Topic of the report is on something that has completed. A report is not a single figure. Examples of reports are journal article, patent application, grant progress report, case report (not patient record).",,,FALSE,http://purl.obolibrary.org/obo/IAO_0000088,resourceType,,,,Report,Class,Data,Metadata,Resource,,,
-metadata,"Data about data, information that describes another set of data.",,,FALSE,http://purl.obolibrary.org/obo/NCIT_C52095,resourceType,,,,metadata,Class,Data,Metadata,Resource,,,
-protocol,"A plan specification which has sufficient level of detail and quantitative information to communicate it between investigation agents, so that different investigation agents will reliably be able to independently reproduce the process.",,,FALSE,http://purl.obolibrary.org/obo/OBI_0000272,resourceType,,,,Protocol,Class,Data,Metadata,Resource,,,
-weblink,The global address of documents and other resources on the World Wide Web.,,,FALSE,http://purl.obolibrary.org/obo/NCIT_C42743,resourceType,,,,,Class,Data,Metadata,Resource,,,
-curatedDataType,The type of information being curated.,"reference sequence, gene symbol, clinical data, gene function, chemical descriptor",,TRUE,,curatedData,,,,curatedDataType,Property,Data,annotationProperty,,,,
-referenceSet,"A set of references (e.g., canonical assembled contigs) which defines a common coordinate space for comparing reference-aligned experimental data.","GRCh38, GRCh37, MMUL1.0, HRC",,TRUE,,curatedData,,,,referenceSet,Property,Data,annotationProperty,,,,
-reference sequence,Syntactic sequences that has a role as reference of an annotation.,,,FALSE,http://rdf.biosemantics.org/ontologies/rsa#ReferenceSequence,curatedDataType,,,,referenceSequence,Property,Data,annotationProperty,,,,
-dataSubtype,"Further qualification of dataType, which may be used to indicate the state of processing of the data, aggregation of the data, or presence of metadata.","normalized, dataMatrix, raw, processed, metadata, representative",,TRUE,,experimentalData,,,,dataSubtype,Property,Data,annotationProperty,,Data_Level,one,
-metadataType,"For files of dataSubtype: metadata, a description of the type of metadata in the file.","individual, biospecimen, assay, data dictionary, manifest, protocol",,FALSE,,experimentalData,,,,metadataType,Property,Data,annotationProperty,,,,
-dataType,"A type of experimental, clinical, or other data. This typically refers to a high-level data type that can be related to an assay type. For example, a file of dataType `genomicVariants` might have an assay value of `whole genome sequencing`.","Volume, Weight, Pharmacokinetic Study, genomicVariants,behavior process, metabolomics, image, geneExpression, isoformExpression, proteomics, particle characterization, kinomics, drugScreen, drugCombinationScreen, cellularPhysiology, chromatinActivity, surveyData, network, clinical, immunoassay, electrophysiology, raw counts, mask image,AlignedReads,SomaticVariants,AnnotatedSomaticVariants,StructuralVariants,GermlineVariants,AnnotatedGermlineVariants,characteristic",dataSubtype,TRUE,,experimentalData,,,,dataType,Property,Data,annotationProperty,,Data,one,
-expressionUnit,Measure used for transcript expression quantification,"TPM,RPKM,FPKM,Counts,Other",,TRUE,,experimentalData,,,,expressionUnit,DataProperty,Data,annotationProperty,,,,
-failedQC,"Whether the sample or data failed QC checks (Yes, No)","Yes, No",,TRUE,,experimentalData,,,,failedQC,DataProperty,Data,annotationProperty,,,,
-Filename,The name of the file.,,"entityId,fileFormat",TRUE,Sage Bionetworks,NF,,,,fileName,Class,Data,annotationProperty,fileName,,one,Automatically filled when using the curator app.
-programmingLanguage,A computer programming language,"Python, R, MATLAB, Java, C, C++, C#, Javascript, bash",,FALSE,Sage Bionetworks,,,,,programmingLanguage,Property,Data,annotationProperty,ngsParameter,,,
-runtimePlatform,"Runtime platform or script interpreter dependencies (e.g. Java v1, Python 2.3).",,,FALSE,Sage Bionetworks,,,,,runtimePlatform,Property,Data,annotationProperty,ngsParameter,,,
-documentation,URL to any documentation describing the resource and its use.,,,FALSE,Sage Bionetworks,,,,,documentation,Property,Data,annotationProperty,ngsParameter,,,
-resourceType,The type of resource being stored and annotated,"experimentalData, curatedData, result, tool, report, metadata, protocol, workflow report,weblink",,TRUE,,sageCommunity,,,,resourceType,Property,Data,annotationProperty,,Resource,,
-fileFormat,"Defined format of the data file, typically corresponding to extension, but sometimes indicating more general group of files produced by the same tool or software","bash script,bedgraph,ai,idx,idat,bam,bai,excel,powerpoint,tif,png,doc,pdf,hdf,fasta,fastq,sam,vcf,bcf,maf,bed,chp,cel,sif,tsv,csv,txt,plink,bigwig,wiggle,gct,bgzip,zip,seg,html,mov,hyperlink,svs,md,flagstat,gtf,raw,msf,rmd,bed narrowPeak,bed broadPeak,bed gappedPeak,avi,pzfx,fig,xml,tar,R script,abf,bpm,dat,jpg,locs,Sentrix descriptor file,Python script,sav,gzip,sdf,RData,hic,ab1,7z,gff3,json,sqlite,svg,sra,recal,tranches,mtx,tagAlign,dup,DICOM,czi,mzML,SPAR,SDAT,nii,PAR,REC,hdr,img,sf,MATLAB script, MATLAB data,tom,fcs,NWB",,TRUE,,sageCommunity,,,,fileFormat,Property,Data,annotationProperty,,File_Format,one,
-progressReportNumber,"Indicates milestone the  data is associated with. Currently only required for projects funded by NTAP, GFF, and NFRI. For GFF studies, this is the ‘progress report’ timeline. Example: if submitting data for the 6-month milestone report for NTAP, progressReportNumber=1.  Also if submitting data associated with first milestone, progressReportNumber =1","1, 2, 3, 4, 5, 6, 7, 8, 9, 10, Not Applicable",,FALSE,,template,,,,progressReportNumber,DataProperty,Data,annotationProperty,,,one,
-comments,Brief free-text comments that may also be important to understanding the resource.,,,FALSE,Sage Bionetworks,experimentalData,,,,comments,DataProperty,Data,annotationProperty,,,many,
-Resource_id,A UUID for a Resource from the NF Research Tools Database,,,FALSE,Sage Bionetworks,dccProperty,,,,Resource_id,Property,Data,annotationProperty,dccProperty,,,
-initiative,"Refers to a funding initiative. This annotation is usually handled by the DCC or funder, not the researcher. ",,,FALSE,Sage Bionetworks,dccProperty,,,,initiative,Property,Data,annotationProperty,dccProperty,,,
-fundingAgency,Refers to the funding organization for the generated resource. This annotation is handled by the DCC.,,,FALSE,Sage Bionetworks,dccProperty,,,,fundingAgency,Property,Data,annotationProperty,dccProperty,,,
-createdOn,Refers to when the resource was created on the platform.,,,FALSE,Sage Bionetworks,synapseProperty,,,,createdOn,Property,Data,annotationProperty,synapseProperty,,,
-createdBy,Refers to the user who created the resource on the platform.,,,FALSE,Sage Bionetworks,synapseProperty,,,,createdBy,Property,Data,annotationProperty,synapseProperty,,,
-modifiedBy,Refers to a user who last modified the resource on the platform.,,,FALSE,Sage Bionetworks,synapseProperty,,,,modifiedBy,Property,Data,annotationProperty,synapseProperty,,,
-id,The entity id for the resource automatically assigned by the platform.,,,FALSE,Sage Bionetworks,synapseProperty,,,,id,Property,Data,annotationProperty,synapseProperty,,,
-etag,Synapse employs an Optimistic Concurrency Control (OCC) scheme to handle concurrent updates. The E-Tag changes every time an entity is updated it is used to detect when a client's current representation of an entity is out-of-date.,,,FALSE,Sage Bionetworks,synapseProperty,,,,etag,Property,Data,annotationProperty,synapseProperty,,,
-parentId,"The id of the parent resource, i.e. the parent folder on the platform. ",,,FALSE,Sage Bionetworks,synapseProperty,,,,parentId,Property,Data,annotationProperty,synapseProperty,,,
-benefactorId,The id of the resource from which access control is inherited.,,,FALSE,Sage Bionetworks,synapseProperty,,,,benefactorId,Property,Data,annotationProperty,synapseProperty,,,
-currentVersion,(Versionable entities only) The current version number of the resource.,,,FALSE,Sage Bionetworks,synapseProperty,,,,currentVersion,Property,Data,annotationProperty,synapseProperty,,,
-dataFileHandleId,(Files only) Refers to the id of the file.,,,FALSE,Sage Bionetworks,synapseProperty,,,,dataFileHandleId,Property,Data,annotationProperty,synapseProperty,,,
-contentSize,(Files only) File size calculated by the platform.,,,FALSE,Sage Bionetworks,synapseProperty,,,,contentSize,Property,Data,annotationProperty,synapseProperty,,,
-type,"Refers to the type of the resource on the platform, e.g. “file”.",,,FALSE,Sage Bionetworks,synapseProperty,,,,type,Property,Data,annotationProperty,synapseProperty,,,
-concreteType,Refers to the class model the data platform uses for representing the resource. This is a low-level field set by the platform and is not a user annotation.,,,FALSE,Sage Bionetworks,synapseProperty,,,,concreteType,Property,Data,annotationProperty,synapseProperty,,,
-author,"The author of the resource; preferably use an ORCID ID, GitHub profile link, etc., if available and a text name if not.",,,FALSE,Sage Bionetworks,,,,,,Property,Data,annotationProperty,,,,
-license,Link to a license or name of license applicable for the resource.,,,FALSE,Sage Bionetworks,,,,,,Property,Data,annotationProperty,,,,
-allograft,"Tissues, cells, or organs transplanted between genetically different individuals of the same species","","",FALSE,https://www.ncbi.nlm.nih.gov/mesh/68064591,transplantationType,,"","",Allograft,Class,Experiment,Method,"","","",""
-xenograft,"Tissues, cells or organs transplanted between animals of different species","","transplantationRecipientSpecies,transplantationRecipientTissue",FALSE,https://www.ncbi.nlm.nih.gov/mesh/68064593,transplantationType,,"","",Xenograft,Class,Experiment,Method,"","","",""
-autograft,"Transplant comprised of an individual's own tissue, transferred from one part of the body to another.","","transplantationRecipientSpecies,transplantationRecipientTissue",FALSE,https://www.ncbi.nlm.nih.gov/mesh/68064592,transplantationType,,"","",Autograft,Class,Experiment,Method,"","","",""
-isograft,"Tissues, cells or organs transplanted between genetically identical individuals","","",FALSE,https://www.ncbi.nlm.nih.gov/mesh/68064596,transplantationType,,"","",Isograft,Class,Experiment,Method,"","","",""
-seconds,"","","",FALSE,"",timePointUnit,,"","",seconds,Class,Experiment,Unit,Time_Unit,"","",""
-minutes,"","","",FALSE,"",timePointUnit,,"","",minutes,Class,Experiment,Unit,Time_Unit,"","",""
-hours,"","","",FALSE,"",timePointUnit,,"","",hours,Class,Experiment,Unit,Time_Unit,"","",""
-days,"","","",FALSE,"",timePointUnit,,"","",days,Class,Experiment,Unit,Time_Unit,"","",""
-weeks,"","","",FALSE,"",timePointUnit,,"","",weeks,Class,Experiment,Unit,Time_Unit,"","",""
-months,"","","",FALSE,"",timePointUnit,,"","",months,Class,Experiment,Unit,Time_Unit,"","",""
-quarters,Time point unit referring to quarters in a year.,"","",FALSE,"","",,"","",quarters,Class,Experiment,Unit,Time_Unit,"","",""
-transplantationType,"Type of transplantation involved in the experiment, derived from MESH","allograft, xenograft, autograft, isograft","transplantationRecipientSpecies,transplantationRecipientTissue",FALSE,Sage Bionetworks,cancer,,,,transplantationType,Property,Experiment,annotationProperty,transplantationCharacteristic,,,
-transplantationRecipientSpecies,Species into which donor tissue was grown,"Human, Mouse",,FALSE,Sage Bionetworks,cancer,,,,transplantationRecipientSpecies,Property,Experiment,annotationProperty,transplantationCharacteristic,,,
-timePointUnit,For timed experiments this represents the unit of time measured,"seconds, minutes, hours, days, weeks, months, quarters",,FALSE,Sage Bionetworks,cancer,,,,timePointUnit,Property,Experiment,annotationProperty,,Time_Unit,,
-experimentalCondition,A free-text description of the experimental condition (e.g. 5 mM doxorubicin).,,,FALSE,Sage Bionetworks,sageCommunity,,,,experimentalCondition,Property,Experiment,annotationProperty,experimentProperty,,,
-experimentalTimepoint,The numeric value indicating the time elapsed from the beginning of the experiment at which the specimen was collected. Use in tandem with timePointUnit,,timePointUnit,FALSE,Sage Bionetworks,sageCommunity,,,,experimentalTimepoint,Property,Experiment,annotationProperty,experimentProperty,,,
-transplantationRecipientTissue,Tissue into which a xenograph sample is transplanted,,,FALSE,Sage Bionetworks,sageCommunity,,,,transplantationRecipientTissue,Property,Experiment,annotationProperty,,,,
-experimentId,"When applicable, an optional identifier that can be used to distinguish or group the experiments that generated the data; also can be used to denote internal batch reference if needed.",,,FALSE,Sage Bionetworks,sageCommunity,,,,experimentId,Property,Experiment,annotationProperty,experimentProperty,,,
-compoundName,"Common name for a compound, e.g. “Selumetinib” (https://pubchem.ncbi.nlm.nih.gov/compound/10127622)",,InChIKey,FALSE,Sage Bionetworks,sageCommunity,,,,compoundName,Property,Experiment,annotationProperty,experimentProperty,,,
-compoundDose,A dose quantity for the treatment compound. To be used with compoundDoseUnit.,,compoundDoseUnit,FALSE,Sage Bionetworks,sageCommunity,,,,compoundDose,Property,Experiment,annotationProperty,experimentProperty,,,
-compoundDoseUnit,A unit associated with the value(s) in compoundDose.,,,FALSE,Sage Bionetworks,sageCommunity,,,,compoundDoseUnit,Property,Experiment,annotationProperty,experimentProperty,,,
-InChIKey,"A unique hash key for a compound, e.g. for “Selumetinib”, the key is CYOHGALHFOKKQC-UHFFFAOYSA-N (https://pubchem.ncbi.nlm.nih.gov/compound/10127622#section=InChI-Key). This is a more reliable identifier than the compound name and should be used if available.",,,FALSE,Sage Bionetworks,sageCommunity,,,,InChIKey,Property,Experiment,annotationProperty,experimentProperty,,,
-genePerturbationType,Specific way in which a single gene was perturbed in a sample,"overexpression, knockdown, knockout, non-targeting control, Not Applicable",,FALSE,Sage Bionetworks,cancer,,,,genePerturbationType,Property,Experiment,annotationProperty,,Gene_Perturbation,,
-genePerturbationTechnology,Technology used to perform gene perturbation,"RNAi, CRISPR, CRE Recombinase",,FALSE,Sage Bionetworks,cancer,,,,genePerturbationTechnology,Property,Experiment,annotationProperty,,Gene_Perturbation_Technology,,
-genePerturbed,The HUGO gene symbol for the gene that is perturbed.,,"genePerturbationType,genePerturbationTechnology",FALSE,Sage Bionetworks,sageCommunity,,,,genePerturbed,Property,Assay,annotationProperty,experimentProperty,,,
-JAX,The Jackson Laboratory,,,FALSE,https://www.jax.org,institution,,,,JAX,Class,Other,Institution,,,,
-Sage Bionetworks,,,,FALSE,,institution,,,,,Class,Other,Institution,,,,
-Albany Medical College,,,,FALSE,,institution,,,,,,,Institution,,,,
-Albert Einstein College of Medicine,,,,FALSE,,institution,,,,,,,Institution,,,,
-Alliant International University,,,,FALSE,,institution,,,,,,,Institution,,,,
-American University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Arizona State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Auburn University, Auburn",,,,FALSE,,institution,,,,,,,Institution,,,,
-Augusta University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Baylor College of Medicine,,,,FALSE,,institution,,,,,,,Institution,,,,
-Baylor University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Boise State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Boston College,,,,FALSE,,institution,,,,,,,Institution,,,,
-Boston University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Bowling Green State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Brandeis University,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Brigham Young University, Provo",,,,FALSE,,institution,,,,,,,Institution,,,,
-Brown University,,,,FALSE,,institution,,,,,,,Institution,,,,
-California Institute of Technology,,,,FALSE,,institution,,,,,,,Institution,,,,
-"California Polytechnic State University, San Luis Obispo",,,,FALSE,,institution,,,,,,,Institution,,,,
-"California State University, Long Beach",,,,FALSE,,institution,,,,,,,Institution,,,,
-"California State University, Northridge",,,,FALSE,,institution,,,,,,,Institution,,,,
-"California State University, Sacramento",,,,FALSE,,institution,,,,,,,Institution,,,,
-Carnegie Mellon University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Case Western Reserve University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Catholic University of America,,,,FALSE,,institution,,,,,,,Institution,,,,
-Central Michigan University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Chapman University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Children's Hospital of Philadelphia,,,,FALSE,,institution,,,,,,,Institution,,,,
-City of Hope,,,,FALSE,,institution,,,,,,,Institution,,,,
-Clarkson University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Clemson University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Cleveland State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Cold Spring Harbor Laboratory,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Colorado State University, Fort Collins",,,,FALSE,,institution,,,,,,,Institution,,,,
-Columbia U. in the City of New York,,,,FALSE,,institution,,,,,,,Institution,,,,
-Cornell University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Creighton University,,,,FALSE,,institution,,,,,,,Institution,,,,
-"CUNY, City College",,,,FALSE,,institution,,,,,,,Institution,,,,
-"CUNY, Hunter College",,,,FALSE,,institution,,,,,,,Institution,,,,
-"CUNY, John Jay College of Criminal Justice",,,,FALSE,,institution,,,,,,,Institution,,,,
-"CUNY, Queens College",,,,FALSE,,institution,,,,,,,Institution,,,,
-Dartmouth College,,,,FALSE,,institution,,,,,,,Institution,,,,
-Delaware State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Desert Research Institute,,,,FALSE,,institution,,,,,,,Institution,,,,
-Drexel University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Duke University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Duquesne University,,,,FALSE,,institution,,,,,,,Institution,,,,
-East Carolina University,,,,FALSE,,institution,,,,,,,Institution,,,,
-East Tennessee State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Eastern Virginia Medical School,,,,FALSE,,institution,,,,,,,Institution,,,,
-Emory University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Florida A&M University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Florida Atlantic University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Florida Institute of Technology,,,,FALSE,,institution,,,,,,,Institution,,,,
-Florida International University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Florida State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Fordham University,,,,FALSE,,institution,,,,,,,Institution,,,,
-George Mason University,,,,FALSE,,institution,,,,,,,Institution,,,,
-George Washington University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Georgetown University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Georgia Institute of Technology,,,,FALSE,,institution,,,,,,,Institution,,,,
-Georgia State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Harvard University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Howard University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Humboldt State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Icahn School of Medicine at Mount Sinai,,,,FALSE,,institution,,,,,,,Institution,,,,
-Idaho State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Illinois Institute of Technology,,,,FALSE,,institution,,,,,,,Institution,,,,
-Illinois State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Indiana University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Indiana University-Purdue University at Indianapolis,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Indiana University, Bloomington",,,,FALSE,,institution,,,,,,,Institution,,,,
-Iowa State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Jackson State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Johns Hopkins University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Kansas State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Kent State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Langston University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Lehigh University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Loma Linda University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Long Island University,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Louisiana State University, Baton Rouge",,,,FALSE,,institution,,,,,,,Institution,,,,
-"Louisiana State University, Health Sciences Center, New Orleans",,,,FALSE,,institution,,,,,,,Institution,,,,
-"Louisiana State University, Health Sciences Center, Shreveport",,,,FALSE,,institution,,,,,,,Institution,,,,
-Louisiana Tech University,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Loyola University, Chicago",,,,FALSE,,institution,,,,,,,Institution,,,,
-Marquette University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Marshall University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Massachusetts General Hospital,,,,FALSE,,institution,,,,,,,Institution,,,,
-Massachusetts Institute of Technology,,,,FALSE,,institution,,,,,,,Institution,,,,
-Medical College of Wisconsin,,,,FALSE,,institution,,,,,,,Institution,,,,
-Medical University of South Carolina,,,,FALSE,,institution,,,,,,,Institution,,,,
-Memorial Sloan Kettering Cancer Center,,,,FALSE,,institution,,,,,,,Institution,,,,
-Mercer University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Miami University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Michigan State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Michigan Technological University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Mississippi State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Missouri University of Science and Technology,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Montana State University, Bozeman",,,,FALSE,,institution,,,,,,,Institution,,,,
-Montclair State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Morehouse School of Medicine,,,,FALSE,,institution,,,,,,,Institution,,,,
-Morgan State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-National Institutes of Health,,,,FALSE,,institution,,,,,,,Institution,,,,
-NCI Center for Cancer Research,,,,FALSE,,institution,,,,,,,Institution,,,,
-New Jersey Institute of Technology,,,,FALSE,,institution,,,,,,,Institution,,,,
-New Mexico State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-New York Medical College,,,,FALSE,,institution,,,,,,,Institution,,,,
-New York University,,,,FALSE,,institution,,,,,,,Institution,,,,
-North Carolina Central University,,,,FALSE,,institution,,,,,,,Institution,,,,
-North Carolina State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-North Dakota State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Northeast Ohio Medical University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Northeastern University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Northern Arizona University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Northern Illinois University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Northwestern University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Nova Southeastern University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Ohio State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Ohio University,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Oklahoma State University, Stillwater",,,,FALSE,,institution,,,,,,,Institution,,,,
-Oregon Health and Science University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Oregon State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Pacific Northwest National Laboratory,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Pennsylvania State University, University Park and Hershey Medical Center",,,,FALSE,,institution,,,,,,,Institution,,,,
-Portland State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Prairie View A&M University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Princeton University,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Purdue University, West Lafayette",,,,FALSE,,institution,,,,,,,Institution,,,,
-Rensselaer Polytechnic Institute,,,,FALSE,,institution,,,,,,,Institution,,,,
-Rice University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Rochester Institute of Technology,,,,FALSE,,institution,,,,,,,Institution,,,,
-Rockefeller University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Rosalind Franklin University ofMedicine and Science,,,,FALSE,,institution,,,,,,,Institution,,,,
-Rush University,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Rutgers State University of New Jersey, New Brunswick",,,,FALSE,,institution,,,,,,,Institution,,,,
-"Rutgers State University of New Jersey, Newark",,,,FALSE,,institution,,,,,,,Institution,,,,
-Saint Louis University,,,,FALSE,,institution,,,,,,,Institution,,,,
-San Diego State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-San Francisco State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-San Jose State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Scripps Research Institute,,,,FALSE,,institution,,,,,,,Institution,,,,
-Seattle Children's,,,,FALSE,,institution,,,,,,,Institution,,,,
-South Dakota State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-"Southern Illinois University, Carbondale",,,,FALSE,,institution,,,,,,,Institution,,,,
-"Southern Illinois University, Edwardsville",,,,FALSE,,institution,,,,,,,Institution,,,,
-Southern Methodist University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Stanford University,,,,FALSE,,institution,,,,,,,Institution,,,,
-State University of New York Polytechnic Institute,,,,FALSE,,institution,,,,,,,Institution,,,,
-"State University of New York, Albany",,,,FALSE,,institution,,,,,,,Institution,,,,
-"State University of New York, Buffalo",,,,FALSE,,institution,,,,,,,Institution,,,,
-"State University of New York, Upstate Medical University",,,,FALSE,,institution,,,,,,,Institution,,,,
-Stevens Institute of Technology,,,,FALSE,,institution,,,,,,,Institution,,,,
-Stony Brook University,,,,FALSE,,institution,,,,,,,Institution,,,,
-"SUNY, Binghamton University",,,,FALSE,,institution,,,,,,,Institution,,,,
-"SUNY, Downstate Health Sciences University",,,,FALSE,,institution,,,,,,,Institution,,,,
-Syracuse University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Tarleton State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Temple University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Tennessee State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Tennessee Technological University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Texas A&M University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Texas Christian University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Texas State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Texas Tech University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Texas Tech University of Health Sciences Center,,,,FALSE,,institution,,,,,,,Institution,,,,
-Thomas Jefferson University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Tufts University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Tulane University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Tuskegee University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Uniformed Services University of the Health Sciences,,,,FALSE,,institution,,,,,,,Institution,,,,
-University College of London,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Akron,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Alabama,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Alabama, Birmingham",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Alabama, Huntsville",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Alabama, Tuscaloosa",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Alaska, Anchorage",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Alaska, Fairbanks",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Arizona,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Arkansas for Medical Sciences,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Arkansas, Fayetteville",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Baltimore,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of California, Berkeley",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of California, Davis",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of California, Irvine",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of California, Los Angeles",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of California, Merced",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of California, Riverside",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of California, San Diego",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of California, San Francisco",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of California, Santa Barbara",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of California, Santa Cruz",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Central Florida,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Chicago,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Cincinnati,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Colorado Boulder,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Colorado Denver and Anschutz Medical Campus,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Connecticut,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Dayton,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Delaware,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Denver,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Florida,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Georgia,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Hawaii, Manoa",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Houston,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Idaho,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Illinois, Chicago",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Illinois, Urbana-Champaign",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Iowa,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Kansas,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Kentucky,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Louisiana at Lafayette,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Louisville,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Maine,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Maryland, Baltimore County",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Maryland, Eastern Shore",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Massachusetts, Amherst",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Massachusetts, Boston",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Massachusetts, Dartmouth",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Massachusetts, Lowell",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Massachusetts, Medical School",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Memphis,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Miami,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Michigan, Ann Arbor",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Minnesota, Duluth",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Minnesota, Twin Cities",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Mississippi,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Missouri, Columbia",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Missouri, Kansas City",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Missouri, Saint Louis",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Montana, Missoula",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Nebraska, Lincoln",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Nebraska, Medical Center",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Nebraska, Omaha",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Nevada, Las Vegas",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Nevada, Reno",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of New Hampshire,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of New Mexico,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of New Orleans,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of North Carolina, Chapel Hill",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of North Carolina, Charlotte",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of North Carolina, Greensboro",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of North Carolina, Wilmington",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of North Dakota,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of North Texas, Denton",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of North Texas, Health Science Center",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Notre Dame,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Oklahoma,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Oregon,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Pennsylvania,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Pittsburgh, Pittsburgh",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Puerto Rico, Mayaguez",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Puerto Rico, Medical Sciences Campus",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Puerto Rico, Rio Piedras",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Rhode Island,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Rochester,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of South Alabama,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of South Carolina, Columbia",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of South Dakota,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of South Florida, Saint Petersburg",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of South Florida, Tampa",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Southern California,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Southern Mississippi,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Tennessee, Health Science Center",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Tennessee, Knoxville",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Texas Health Science Center, Houston",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Texas Health Science Center, San Antonio",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Texas Health Science Center, Tyler",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Texas M. D. Anderson Cancer Center,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Texas Medical Branch at Galveston,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Texas Rio Grande Valley,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Texas Southwestern Medical Center,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Texas, Arlington",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Texas, Austin",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Texas, Dallas",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Texas, El Paso",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Texas, San Antonio",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Toledo,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Tulsa,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Utah,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Vermont,,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Virginia, Charlottesville",,,,FALSE,,institution,,,,,,,Institution,,,,
-"University of Washington, Seattle",,,,FALSE,,institution,,,,,,,Institution,,,,
-University of West Florida,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Wisconsin-Madison,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Wisconsin-Milwaukee,,,,FALSE,,institution,,,,,,,Institution,,,,
-University of Wyoming,,,,FALSE,,institution,,,,,,,Institution,,,,
-Utah State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Van Andel Research Institute,,,,FALSE,,institution,,,,,,,Institution,,,,
-Vanderbilt University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Villanova University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Virginia Commonwealth University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Virginia Polytechnic Institute and State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Wake Forest University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Washington State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Washington University in St. Louis,,,,FALSE,,institution,,,,,,,Institution,,,,
-Wayne State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-West Virginia University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Western Michigan University,,,,FALSE,,institution,,,,,,,Institution,,,,
-Wichita State University,,,,FALSE,,institution,,,,,,,Institution,,,,
-William & Mary,,,,FALSE,,institution,,,,,,,Institution,,,,
-Worcester Polytechnic Institute,,,,FALSE,,institution,,,,,,,Institution,,,,
-Yale University,,,,FALSE,,institution,,,,,,,Institution,,,,
-workflow,"Name and version of the workflow used to generate/analyze the data",,workflowLink,FALSE,,,,,,workflow,Property,Processing,annotationProperty,,,,
-workflowLink,"Workflow URL reference",,,FALSE,,,,,,workflowLink,Property,Processing,annotationProperty,,,,
-genomicReference,"Version of genome reference used for alignment in processing workflow",,,FALSE,,,,,,genomicReference,Property,Processing,annotationProperty,,,,
-averageInsertSize,"Average insert size as reported by samtools",,,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads&anchor=average_insert_size,,,,,averageInsertSize,Property,Processing,annotationProperty,,,,
-averageReadLength,"Average read length collected from samtools",,,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads&anchor=average_read_length,,,,,averageReadLength,Property,Processing,annotationProperty,,,,
-averageBaseQuality,"Average base quality collected from samtools",,,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads&anchor=average_base_quality,,,,,averageBaseQuality,Property,Processing,annotationProperty,,,,
-pairsOnDifferentChr,"Pairs on different chromosomes collected from samtools",,,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads&anchor=pairs_on_diff_chr,,,,,pairsOnDifferentChr,Property,Processing,annotationProperty,,,,
-readsDuplicatedPercent,"Percent of duplicated reads collected from samtools",,,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads&anchor=proportion_reads_duplicated,,,,,readsDuplicatedPercent,Property,Processing,annotationProperty,,,,
-readsMappedPercent,"Percent of mapped reads collected from samtools",,,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads&anchor=proportion_reads_mapped,,,,,readsMappedPercent,Property,Processing,annotationProperty,,,,
-meanCoverage,"Mean coverage for whole genome sequencing, or mean target coverage for whole exome and targeted sequencing, collected from Picard Tools",,,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads&anchor=mean_coverage,,,,,meanCoverage,Property,Processing,annotationProperty,,,,
-proportionCoverage10x,"Proportion of all reference bases for whole genome sequencing, or targeted bases for whole exome and targeted sequencing, that achieves 10X or greater coverage from Picard Tools",,,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads&anchor=proportion_coverage_10x,,,,,proportionCoverage10x,Property,Processing,annotationProperty,,,,
-proportionCoverage30x,"Proportion of all reference bases for whole genome sequencing, or targeted bases for whole exome and targeted sequencing, that achieves 30X or greater coverage from Picard Tools",,,FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=aligned_reads&anchor=proportion_coverage_30x,,,,,proportionCoverage30x,Property,Processing,annotationProperty,,,,
-isFilteredReads,"Whether the reads in the processed result has been filtered by adding a 'PASS' filter or other filters as determined by the data generator",,,FALSE,Sage Bionetworks,,,,,isFilteredReads,Property,Processing,annotationProperty,,,,
-head,The head is the anterior-most division of the body.,"","",FALSE,http://purl.obolibrary.org/obo/UBERON_0000033,bodyPart,,"","",Head,Class,Biosample,Body_Part,Body_Part,"","",""
-lymph node,A bean-shaped organ surrounded by a connective tissue capsule.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C12745,organ,,"","",Lymph_Node,Class,Biosample,Body_Part,Organ,"","",""
-kidney,One of the two bean-shaped organs located on each side of the spine in the retroperitoneum.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C12415,organ,,"","",Kidney,Class,Biosample,Body_Part,Organ,"","",""
-skin,The integument of an animal (as a fur-bearing mammal or a bird) separated from the body usually with its hair or feathers.,"","",FALSE,http://purl.obolibrary.org/obo/BTO_0001253,organ,,"","",Skin,Class,Biosample,Body_Part,Organ,"","",""
-mammary gland,"A specialized accessory gland of the skin of mammals that secretes milk. The gland is typically only developed in females, and regresses in males.","","",FALSE,http://purl.obolibrary.org/obo/UBERON_0001911,organ,,"","",Mammary_Gland,Class,Biosample,Body_Part,Organ,"","",""
-nerves,"Any of the filamentous bands of nervous tissue that connect parts of the nervous system with the other organs, conduct nervous impulses, and are made up of axons and dendrites together with protective and supportive structures.","","",FALSE,http://purl.obolibrary.org/obo/BTO_0000925,organ,,"","",Nerves,Class,Biosample,Body_Part,Organ,"","",""
-brain,The portion of the vertebrate central nervous system that constitutes the organ of thought and neural coordination.,"","",FALSE,http://purl.obolibrary.org/obo/BTO_0000142,organ,,"","",Brain,Class,Biosample,Body_Part,Organ,"","",""
-blood,"The fluid that circulates in the heart, arteries, capillaries, and veins of a vertebrate animal carrying nourishment and oxygen to and bringing away waste products from all parts of the body.","","",FALSE,http://purl.obolibrary.org/obo/BTO_0000089,organ,,"","",Blood,Class,Biosample,Body_Part,Organ,"","",""
-breast,The fore or ventral part of the body between the neck and the abdomen.,"","",FALSE,http://purl.obolibrary.org/obo/BTO_0000149,organ,,"","",Breast,Class,Biosample,Body_Part,Organ,"","",""
-colon,The part of the large intestine that extends from the cecum to the rectum.,"","",FALSE,http://purl.obolibrary.org/obo/BTO_0000269,organ,,"","",Colon,Class,Biosample,Body_Part,Organ,"","",""
-lung,One of the usually paired compound saccular thoracic organs that constitute the basic respiratory organ of air-breathing vertebrates.,"","",FALSE,http://purl.obolibrary.org/obo/BTO_0000763,organ,,"","",Lung,Class,Biosample,Body_Part,Organ,"","",""
-prostate,Lobular organ the parenchyma of which has as its parts glandular acini which are continuous with the prostatic part of the urethra.,"","",FALSE,http://purl.obolibrary.org/obo/FMA_9600,organ,,"","",Prostate,Class,Biosample,Body_Part,Organ,"","",""
-pancreas,A large lobulated gland of vertebrates that secretes digestive enzymes and the hormones insulin and glucagon.,"","",FALSE,http://purl.obolibrary.org/obo/BTO_0000988,organ,,"","",Pancreas,Class,Biosample,Body_Part,Organ,"","",""
-ovary,One of the typically paired essential female reproductive organs that produce eggs and in vertebrates female sex hormones.,"","",FALSE,http://purl.obolibrary.org/obo/BTO_0000975,organ,,"","",Ovary,Class,Biosample,Body_Part,Organ,"","",""
-spleen,"A highly vascular ductless organ that is located in the left abdominal region near the stomach or intestine of most vertebrates and is concerned with final destruction of red blood cells, filtration and storage of blood, and production of lymphocytes.","","",FALSE,http://purl.obolibrary.org/obo/BTO_0001281,organ,,"","",Spleen,Class,Biosample,Body_Part,Organ,"","",""
-bone marrow,"The soft, fatty, vascular tissue that fills most bone cavities and is the source of red blood cells and many white blood cells.","","",FALSE,http://purl.obolibrary.org/obo/BTO_0000141,organ,,"","",Bone_Marrow,Class,Biosample,Body_Part,Organ,"","",""
-Bursa Of Fabricius,"An epithelial outgrowth of lymphoid tissue in the cloaca of young birds, responsible for B-lymphocyte maturation. It undergoes atrophy and involution at six months of age.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C111141,organ,,"","",Bursa_Of_Fabricius,Class,Biosample,Body_Part,Organ,"","",""
-nose,A structure of special sense serving as an organ of the sense of smell and as an entrance to the respiratory tract.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C12756,organ,,"","",Nose,Class,Biosample,Body_Part,Organ,"","",""
-Eye,The organ of sight or vision. [ NCI ],"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C12401,organ,,"","",Eye,Class,Biosample,Body_Part,Organ,"","",""
-mesentery,"","","",FALSE,"",organ,,"","",Mesentary,Class,Biosample,Body_Part,"","","",""
-scalp,"","","",FALSE,"",bodyPart,,"","",Scalp,Class,Biosample,Body_Part,"","","",""
-pelvis,"","","",FALSE,"",bodyPart,,"","",Pelvis,Class,Biosample,Body_Part,"","","",""
-neck,"","","",FALSE,"",bodyPart,,"","",Neck,Class,Biosample,Body_Part,"","","",""
-leg,"","","",FALSE,"",bodyPart,,"","",Leg,Class,Biosample,Body_Part,"","","",""
-liver,"","","",FALSE,"",organ,,"","",Liver,Class,Biosample,Body_Part,"","","",""
-axilla,"","","",FALSE,"",bodyPart,,"","",Axilla,Class,Biosample,Body_Part,"","","",""
-acetabulum,"","","",FALSE,"",bodyPart,,"","",Acetabulum,Class,Biosample,Body_Part,"","","",""
-forearm,"","","",FALSE,"",bodyPart,,"","",Forearm,Class,Biosample,Body_Part,"","","",""
-muscle,"","","",FALSE,"",bodyPart,,"","",Muscle,Class,Biosample,Body_Part,"","","",""
-finger,"","","",FALSE,"",bodyPart,,"","",Finger,Class,Biosample,Body_Part,"","","",""
-thoracic spine,"","","",FALSE,http://purl.obolibrary.org/obo/UBERON_0006073,bodyPart,,"","",Thoracic_Spine,Class,Biosample,Body_Part,"","","",""
-groin,Anatomically also known as the inguinal part of abdomen.,"","",FALSE,http://purl.obolibrary.org/obo/UBERON_0008337,bodyPart,,"","",Groin,Class,Biosample,Body_Part,"","","",""
-back,Anatomically also known as the dorsum.,"","",FALSE,http://purl.obolibrary.org/obo/UBERON_0001137,bodyPart,,"","",Back,Class,Biosample,Body_Part,"","","",""
-iliac spine,"","","",FALSE,http://purl.obolibrary.org/obo/UBERON_0013707,bodyPart,,"","",Iiiac_Spine,Class,Biosample,Body_Part,"","","",""
-spine,"","","",FALSE,http://purl.obolibrary.org/obo/UBERON_0001130,bodyPart,,"","",Spine,Class,Biosample,Body_Part,"","","",""
-shoulder,"","","",FALSE,"",bodyPart,,"","",Shoulder,Class,Biosample,Body_Part,"","","",""
-scapula,"","","",FALSE,"",bodyPart,,"","",Scapula,Class,Biosample,Body_Part,"","","",""
-Schwann cell precursor,A giioblast cell that develops from a migratory neural crest cell. The SCP is embedded among neurons (axons) with minimal extracellular spaces separating them from nerve cell membranes and has no basal lamina. In rodents SCPs are the only cells in the Schwann cell linage that expresses Cdh19.,"","",FALSE,http://purl.obolibrary.org/obo/CL_0002375,cellType,,"","",Schwann_Cell_Precursor,Class,Biosample,Cell,Primary_Cell,"","",""
-B-lymphocytes,A lymphocyte of B lineage with the phenotype CD19-positive and surface immunoglobulin-positive.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/efo/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FCL_0000236,cellType,,"","",B-lymphocytes,Class,Biosample,Cell,Primary_Cell,"","",""
-Embryonic stem cells,Embryonic stem (ES) cells are cells derived from the inner cell mass of the early embryo that can be propagated indefinitely in the primitive undifferentiated state while remaining pluripotent.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C12935,cellType,,"","",Embryonic_Stem_Cells,Class,Biosample,Cell,Primary_Cell,"","",""
-iPSC,Induced pluripotent stem cells (iPS cells or iPSCs) are a type of pluripotent stem cell artificially derived from a non-pluripotent cell.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/efo/terms?iri=http%3A%2F%2Fwww.ebi.ac.uk%2Fefo%2FEFO_0004905,cellType,,"","",iPSC,Class,Biosample,Cell,iPSC,"","",""
-iPSC-derived telencephalic organoids,three-dimensional neural cultures (organoids) derived from induced pluripotent stem cells.,"","",FALSE,https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4519016/,cellType,,"","",iPSC-derived_telencephalic_organoids,Class,Biosample,Cell,iPSC,"","",""
-GABAergic neurons,A neuron that uses GABA as a vesicular neurotransmitter.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/zfa/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FZFA_0009276,cellType,,"","",GABAergic_neurons,Class,Biosample,Cell,Primary_Cell,"","",""
-monocytes,"Myeloid mononuclear recirculating leukocyte that can act as a precursor of tissue macrophages, osteoclasts and some populations of tissue dendritic cells.","","",FALSE,https://www.ebi.ac.uk/ols/ontologies/efo/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FCL_0000576,cellType,,"","",monocytes,Class,Biosample,Cell,Primary_Cell,"","",""
-microglia,"The small, non-neural, interstitial cells of mesodermal origin that form part of the supporting structure of the central nervous system.","","",FALSE,https://www.ebi.ac.uk/ols/ontologies/bto/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FBTO_0000078,cellType,,"","",microglia,Class,Biosample,Cell,Primary_Cell,"","",""
-macrophages,"A mononuclear phagocyte present in variety of tissues, typically differentiated from monocytes, capable of phagocytosing a variety of extracellular particulate material, including immune complexes, microorganisms, and dead cells.","","",FALSE,https://www.ebi.ac.uk/ols/ontologies/cl/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FCL_0000235,cellType,,"","",macrophages,Class,Biosample,Cell,Primary_Cell,"","",""
-astrocytes,"Astrocytes (from 'star' cells) are irregularly shaped with many long processes, including those with end-feet which form the glial (limiting) membrane and directly and indirectly contribute to the blood-brain barrier.","","",FALSE,https://www.ebi.ac.uk/ols/ontologies/cl/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FCL_0000127,cellType,,"","",astrocytes,Class,Biosample,Cell,Primary_Cell,"","",""
-SH-SY5Y,Human neuroblastoma clonal subline of the neuroepithelioma cell line SK-N-SH that had been established in 1970 from the bone marrow biopsy of a 4-year-old girl with metastatic neuroblastoma.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/bto/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FBTO_0000793,cellType,,"","",SH-SY5Y,Class,Biosample,Cell,Cell_Line,"","",""
-GLUtamatergic neurons,"Have Glutamate receptors, which are synaptic receptors located primarily on the membranes of neuronal cells. Glutamate (the conjugate base of glutamic acid) is abundant in the human body, but particularly in the nervous system and especially prominent in the human brain.","","",FALSE,https://en.wikipedia.org/wiki/Glutamate_receptor,cellType,,"","",GLUtamatergic neurons,Class,Biosample,Cell,Primary_Cell,"","",""
-NeuN+,Is a neuronal nuclear antigen that is commonly used as a biomarker for neurons and NeuN immunoreactivity has been widely used to identify neurons in tissue culture to measure the neuron(positive)/glia(negative) ratio in brain regions.,"","",FALSE,https://en.wikipedia.org/wiki/NeuN,cellType,,"","",NeuN+,Class,Biosample,Cell,Primary_Cell,"","",""
-NeuN-,Is a neuronal nuclear antigen that is commonly used as a biomarker for neurons and NeuN immunoreactivity has been widely used to identify neurons in tissue culture to measure the neuron(positive)/glia(negative) ratio in brain regions.,"","",FALSE,https://en.wikipedia.org/wiki/NeuN,cellType,,"","",NeuN-,Class,Biosample,Cell,Primary_Cell,"","",""
-epithelial,Somatic cells that cover the surface of the body and line its cavities.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/efo/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FCL_0000066,cellType,,"","",epithelial,Class,Biosample,Cell,Primary_Cell,"","",""
-epithelial-like,"In cell morphology, epithelial-like cells are polygonal in shape with more regular dimensions, and grow attached to a substrate in discrete patches.","","",FALSE,https://www.thermofisher.com/us/en/home/references/gibco-cell-culture-basics/cell-morphology.html,cellType,,"","",epithelial-like,Class,Biosample,Cell,Primary_Cell,"","",""
-fibroblast,A connective tissue cell which secretes an extracellular matrix rich in collagen and other macromolecules. Flattened and irregular in outline with branching processes; appear fusiform or spindle-shaped.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/cl/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FCL_0000057,cellType,,"","",fibroblast,Class,Biosample,Cell,Primary_Cell,"","",""
-round,A phenotype observation at the level of the cell shape where the cell is round,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/cmpo/terms?iri=http%3A%2F%2Fwww.ebi.ac.uk%2Fcmpo%2FCMPO_0000118,cellType,,"","",round,Class,Biosample,Cell,Primary_Cell,"","",""
-lymphoblast,"Often referred to as a blast cell. Unlike other usages of the suffix -blast a lymphoblast is a further differentiation of a lymphocyte, T- or B-, occasioned by an antigenic stimulus. The lymphoblast usually develops by enlargement of a lymphocyte, active re-entry to the S phase of the cell cycle, mitogenesis and production of much m-RNA and ribosomes.","","",FALSE,https://www.ebi.ac.uk/ols/ontologies/bto/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FBTO_0000772,cellType,,"","",lymphoblast,Class,Biosample,Cell,Primary_Cell,"","",""
-CD8+ T-Cells,"Is a T lymphocyte (a type of white blood cell) that kills cancer cells, cells that are infected (particularly with viruses), or cells that are damaged in other ways.","","",FALSE,https://en.wikipedia.org/wiki/Cytotoxic_T_cell,cellType,,"","",CD8_T-Cells,Class,Biosample,Cell,Primary_Cell,"","",""
-arachnoid,An arachnoid mater is a delicate membrane that encloses the spinal cord and brain and lies between the pia mater and dura mater.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/bto/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FBTO_0001636,cellType,,"","",arachnoid,Class,Biosample,Cell,Tissue,"","",""
-meningioma,A central nervous system cancer tissue that are manifested in the central nervous system and arise from the arachnoid 'cap' cells of the arachnoid villi in the meninges.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/doid/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FDOID_3565,cellType,,"","",meningioma,Class,Biosample,Cell,Tissue,"","",""
-schwannoma,"A neoplasm that arises from SCHWANN CELLS of the cranial, peripheral, and autonomic nerves.","","",FALSE,https://www.ebi.ac.uk/ols/ontologies/efo/terms?iri=http%3A%2F%2Fwww.ebi.ac.uk%2Fefo%2FEFO_0000693,cellType,,"","",schwannoma,Class,Biosample,Cell,Tissue,"","",""
-oligodendrocyte,A class of large neuroglial (macroglial) cells in the central nervous system. Form the insulating myelin sheath of axons in the central nervous system.,"","",FALSE,http://purl.obolibrary.org/obo/CL_0000128,cellType,,"","",oligodendrocyte,Class,Biosample,Cell,Cell,"","",""
-schwann,Schwann cells are a variety of glial cell that keep peripheral nerve fibres (both myelinated and unmyelinated) alive.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/bto/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FBTO_0001220,cellType,,"","",schwann,Class,Biosample,Cell,Cell,"","",""
-iPSC-derived neuron,"","","",FALSE,Sage Bionetworks,cellType,,"","",iPSC-derived_neuron,Class,Biosample,Cell,iPSC,"","",""
-iPSC-derived glia,"","","",FALSE,Sage Bionetworks,cellType,,"","",iPSC-derived_glia,Class,Biosample,Cell,iPSC,"","",""
-iPSC-derived astrocytes,"","","",FALSE,Sage Bionetworks,cellType,,"","",iPSC-derived_astrocytes,Class,Biosample,Cell,iPSC,"","",""
-monocyte-derived microglia,"","","",FALSE,Sage Bionetworks,cellType,,"","",monocyte-derived_microglia,Class,Biosample,Cell,Primary_Cell,"","",""
-iPSC-derived neuronal progenitor cell,"","","",FALSE,Sage Bionetworks,cellType,,"","",iPSC-derived_neuronal_progenitor_cell,Class,Biosample,Cell,iPSC,"","",""
-CD138+,"","","",FALSE,"",cellType,,"","",CD138_positive,Class,Biosample,Cell,Cell,"","",""
-CNON,Cultured Neuronal cells derived from Olfactory Neuroepithelium,"","",FALSE,https://www.synapse.org/#!Synapse:syn4590897,cellType,,"","",CNON,Class,Biosample,Cell,Cell,"","",""
-teratoma,"A non-seminomatous germ cell tumor characterized by the presence of various tissues which correspond to the different germinal layers (endoderm, mesoderm, and ectoderm). It occurs in the testis, ovary, and extragonadal sites including central nervous system, mediastinum, lung, and stomach","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C3403,cellType,,"","",Teratoma,Class,Biosample,Cell,Cell,"","",""
-cultured Muller glia,"Astrocyte-like radial glial cell that extends vertically throughout the retina, with the nucleus are usually in the middle of the inner nuclear layer. [ http://www.ncbi.nlm.nih.gov/pubmed/21911394 GOC : NV ]","","",FALSE,http://purl.obolibrary.org/obo/CL_0000636,cellType,,"","",Müller cell,Class,Biosample,Cell,Cell,"","",""
-DRG/nerve root neurosphere cell,"Dorsal root ganglia/nerve root neurosphere cells (DNSCs) are cultured from embryonic DRGs/nerve roots and have been used in in vitro sphere assays to study the origin of para-spinal neurofibromas. See reference PMC4254535","","",FALSE,,cellType,,"","",DNSC,Class,Biosample,Cell,Cell,"","",""
-28cNF,A primary cutaneous neurofibroma cell line; not broadly available. See the immortalized version (i28NF).,"","",FALSE,"",modelSystemName,"","","",28NF,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-3PNF_FiPSsv_PM_2,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UN11,modelSystemName,"","","",3PNF_FiPSsv_PM_2,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-3PNF_SiPSsv_MM_11,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UN12,modelSystemName,"","","",3PNF_SiPSsv_MM_11,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-5PNF_TDiPSsv_MM_4,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UN13,modelSystemName,"","","",5PNF_TDiPSsv_MM_4,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-5PNF_TDiPSsv_PM_6,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UN14,modelSystemName,"","","",5PNF_TDiPSsv_PM_6,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-6PNF_SiPSrv_PM_2,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UN15,modelSystemName,"","","",6PNF_SiPSrv_PM_2,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-7PNF_SiPSrv_PM_12,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UN16,modelSystemName,"","","",7PNF_SiPSrv_PM_12,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-90-8,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_1B47,modelSystemName,"","","",90-8,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-AC007-hTERT,Human arachnoid cell line,"","",FALSE,"",modelSystemName,"","","",AC007-hTERT,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-BJFF.6,iPSCs created with foreskin fibroblasts.,"","",FALSE,"",modelSystemName,"","","",8a213a9d-392b-4746-8f59-c12f753d9217,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Ben-Men-1,Human meningioma cell line (RRID:CVCL_1959),"","",FALSE,https://web.expasy.org/cellosaurus/CVCL_1959,modelSystemName,"","","",Ben-Men-1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Dh5 alpha,[From GFF:] Dh5 alpha,"","",FALSE,"",modelSystemName,"","","",68977077-e0a3-40df-92ab-d62285edd23c,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Dhh-Cre; NF1Arg681*/flox Schwann Cells,[From GFF:] Dhh-Cre; NF1Arg681*/flox Schwann Cells,"","",FALSE,"",modelSystemName,"","","",1ae5651a-818f-4732-8045-17bea2555056,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-ELK-TAD Luciferase Reporter HEK293 Stable,[From GFF:] ELK-TAD Luciferase Reporter HEK293 Stable,"","",FALSE,"",modelSystemName,"","","",c88fcbc9-24c1-4f2b-8d13-02f5037dcf1c,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-ELK-TAD Luciferase Reporter HEK293 Stable NF1 -/-,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information. ELK-TAD Luciferase Reporter HEK293 Stable NF1 -/-,"","",FALSE,"",modelSystemName,"","","",3239573e-4ae1-4e01-8098-00dce6ac0a84,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Fb93.1,Cell line generated by Ray Mattingly's lab.,"","",FALSE,"",modelSystemName,"","","",Fb93.1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-GM11601,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_AA01,modelSystemName,"","","",GM11601,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-GM11602,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_AA02,modelSystemName,"","","",GM11602,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-GM23338,"[From GFF:] iPSC NF1 WT, PGP1 cells","","",FALSE,"",modelSystemName,"","","",4c4e4b03-5975-4708-a25c-f6c45cbe3abf,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HBE135-E6E7,[From ATCC:] The HBE135-E6E7 cell line was derived from normal bronchial epithelium taken from a man undergoing lobectomy for squamous cell carcinoma. Cells from the primary explant in their first passage were infected with the recombinant retrovirus LXSN16E6E7 containing the human papilloma virus (HPV) E6E7 gene.,"","",FALSE,"",modelSystemName,"","","",0a1a3741-0337-4067-95ab-fb0dc9562d66,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293,Human Embryonic Kidney 293 cell line,"","",FALSE,https://www.cellosaurus.org/CVCL_0045,modelSystemName,"","","",HEK293,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- Exon 17 #A15 G629R cryptic splice,[From GFF:] HEK293 NF1 -/- Exon 17 #A15 G629R cryptic splice,"","",FALSE,"",modelSystemName,"","","",ae765b00-9189-4a72-8ae7-cddc41e24055,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- Exon 17 #B48 G629R cryptic splice,[From GFF:] HEK293 NF1 -/- Exon 17  #B48 G629R cryptic splice,"","",FALSE,"",modelSystemName,"","","",9b4b8eca-f981-440d-b478-0a5483353368,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- Exon 47 insT #14,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information. HEK293 NF1 -/- Exon 47 insT #14,"","",FALSE,"",modelSystemName,"","","",130fd347-28e1-46c2-a72d-d243e99322b7,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- Exon 52 R2550X #5,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information. HEK293 NF1 -/- Exon 52 R2550X #5,"","",FALSE,"",modelSystemName,"","","",7d565aea-0917-428b-9101-d2a19f3fbcf1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- clone 2,[From GFF:] HEK293 NF1 -/- clone 2,"","",FALSE,"",modelSystemName,"","","",f59f3308-a440-497d-8eee-8d7756a9ae2b,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- with R1306X mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information.  HEK293 NF1 -/- with R1306X mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",02dacc42-ea46-48fb-a4df-7a875d801086,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- with R192X mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information.  HEK293 NF1 -/- with R192X mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",fb67363f-d309-4c7c-ba1e-f295ba411018,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- with R1947X mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information.  HEK293 NF1 -/- with R1947X mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",14353c91-2be9-4617-b337-c29080961826,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- with R2550X mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information.  HEK293 NF1 -/- with R2550X mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",aa32fc67-9cc3-4d31-bcbd-f7044f9fd484,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- with R461X mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information.  HEK293 NF1 -/- with R461X mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",3f29aa26-1d05-453a-a6ac-d4e37d609dba,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- with R681X mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information.  HEK293 NF1 -/- with R681X mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",32f73d96-fd2a-4966-a150-ba5fa47d150c,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- with R816X mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information.  HEK293 NF1 -/- with R816X mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",f047cff6-98c8-4562-b589-94b864ae35a1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- with WT mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information. HEK293 NF1 -/- with WT mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",f2d00598-9db3-4549-a473-16b1db349614,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HEK293 NF1 -/- with WT tagged mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information. HEK293 NF1 -/- with WT tagged mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",96d339f9-9d19-40c3-8f81-3590f7c00205,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HeLa SilenciX NF1,HeLa cervical cancer cells with stable (EBV-based siRNA) knockdown of the NF1 gene.,"","",FALSE,"",modelSystemName,"","","",2549e536-b033-43e4-acf6-501499b6e498,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-JH-2-002-CL,Cell line derived from JHU biobank individual,"","",FALSE,"",modelSystemName,"","","",JH-2-002-CL,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-JH-2-079-CL,Cell line derived from JHU biobank individual,"","",FALSE,"",modelSystemName,"","","",JH-2-079-CL,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-JH-2-103-CL,Cell line derived from JHU biobank individual,"","",FALSE,"",modelSystemName,"","","",JH-2-103-CL,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-JHU 2-002-CL,An MPNST cell line derived from JHU NF1 Biobank tumor specimen JHU 2-002.,"","",FALSE,Sage Bionetworks,modelSystemName,"","","",JHU 2-002-CL,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-JHU 2-002-PDX,A PDX model derived from JHU NF1 Biobank tumor specimen JHU 2-002.,"","",FALSE,Sage Bionetworks,modelSystemName,"","","",JHU 2-002-PDX,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-JHU 2-079-CL,An MPNST cell line derived from JHU NF1 Biobank tumor specimen JHU 2-079.,"","",FALSE,Sage Bionetworks,modelSystemName,"","","",JHU 2-079-CL,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-JHU 2-079-PDX,A PDX model derived from JHU NF1 Biobank tumor specimen JHU 2-079.,"","",FALSE,Sage Bionetworks,modelSystemName,"","","",JHU 2-079-PDX,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-JHU 2-103-CL,An MPNST cell line derived from JHU NF1 Biobank tumor specimen JHU 2-103.,"","",FALSE,Sage Bionetworks,modelSystemName,"","","",JHU 2-103-CL,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-JHU 2-103-PDX,A PDX model derived from JHU NF1 Biobank tumor specimen JHU 2-103.,"","",FALSE,Sage Bionetworks,modelSystemName,"","","",JHU 2-103-PDX,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-KCL024,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_A257,modelSystemName,"","","",KCL024,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-KCL025,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_A258,modelSystemName,"","","",KCL025,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Lis42_NF1_1N,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_Y368,modelSystemName,"","","",Lis42_NF1_1N,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Lis47_NF1_2N,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_Y373,modelSystemName,"","","",Lis47_NF1_2N,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-M3 MPNST,A patient-derived MPNST cell line,"","",FALSE,Sage Bionetworks,modelSystemName,"","","",M3_MPNST,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-NCC-MPNST1-C1,MPNST tumor cell line from an NF1 patient.,"","",FALSE,"",modelSystemName,"","","",fc3ae45e-9a5b-4fa5-8430-f53479f07f5a,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-NCC-MPNST2-C1,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_YU13,modelSystemName,"","","",NCC-MPNST2-C1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-NCC-MPNST3-C1,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_YU14,modelSystemName,"","","",NCC-MPNST3-C1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-NCC-MPNST3-X2-C1,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_YU15,modelSystemName,"","","",NCC-MPNST3-X2-C1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-NCC-MPNST4-C1,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_YU16,modelSystemName,"","","",NCC-MPNST4-C1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-NCC-MPNST5-C1,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_YU17,modelSystemName,"","","",NCC-MPNST5-C1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-NF1,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_JG80,modelSystemName,"","","",NF1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-NF1-R68X Embryonic cells,[From GFF:] NF1-R68X Embryonic cells,"","",FALSE,"",modelSystemName,"","","",90748442-be62-44f1-899e-804cd5600823,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-NF2-/- AC007-hTERT,Knock-out cell line developed by CRISPR targeting NF2 exon 8 in AC007-hTERT,"","",FALSE,"",modelSystemName,"","","",hTERT_NF2_arachnoid,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Nf1-/- Epithelial lung cells,"[From GFF:] Nf1-/- Epithelial lung cells, derived from HBE135-E6E7 epithelial lung cells","","",FALSE,"",modelSystemName,"","","",779714c8-f522-4355-a502-d5d2e6e09afa,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Nf1-/- HEK 293,[From GFF:] Nf1-/- HEK 293,"","",FALSE,"",modelSystemName,"","","",44f9c496-ddd8-4e4b-bddb-6b93f7e04fc2,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Nf1-/- skin-derived precursor cells,[From GFF:] Nf1-/- skin-derived precursor cells,"","",FALSE,"",modelSystemName,"","","",15c3bd82-9791-4a53-b6f7-4d23b882a285,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Nf1Arg681*/+ ES,[From GFF:] Nf1Arg681*/+ ES,"","",FALSE,"",modelSystemName,"","","",6ff97eee-5c1a-4439-9df6-d1715cbdd189,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Nf1Arg681*/Arg681* ES,[From GFF:] Nf1Arg681*/Arg681* ES,"","",FALSE,"",modelSystemName,"","","",70c1e3f6-751f-49e4-aa47-e3bea4aeac43,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Nf1Arg681*/Arg681* MEFs,[From GFF:] Nf1Arg681*/Arg681* MEFs,"","",FALSE,"",modelSystemName,"","","",47f50ef0-8d59-430d-9d05-7df1a4f41c3b,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Nf2-/- Schwann SC (mouse) (PMID26554010),A Nf2-/- mouse schwann cell line; see PMID:26554010,"","",FALSE,"",modelSystemName,"","","",Nf2-/-Schwann_mouse,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-S462,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_1Y70,modelSystemName,"","","",S462,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-S462.TY,"","","",FALSE,https://web.expasy.org/cellosaurus/VCL_JK02,modelSystemName,"","","",S462.TY,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-S520,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_AX35,modelSystemName,"","","",S520,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-SC4 [Mouse schwannoma],Mouse schwannoma knock-out cell line (RRID:CVCL_JK03),"","",FALSE,https://web.expasy.org/cellosaurus/CVCL_JK03,modelSystemName,"","","",SC4,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-ST88-14,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_8916,modelSystemName,"","","",ST88-14,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-STS-26T,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_8917,modelSystemName,"","","",STS-26T,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-SZ-NF1,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_YL57,modelSystemName,"","","",SZ-NF1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-SZ-NF2,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_YL58,modelSystemName,"","","",SZ-NF2,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-SZ-NF4,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_YL59,modelSystemName,"","","",SZ-NF4,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Schwann cell NF1 -/- (iPN97.4 #24),[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information. Schwann cell NF1 -/- (iPN97.4 #24),"","",FALSE,"",modelSystemName,"","","",234515dd-7c28-4172-83c7-59dddfa22acb,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Schwann cell NF1 -/- with R681X mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information. Schwann cell NF1 -/- with R681X mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",faf29a50-3168-4ccd-a484-f2a78a026af3,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Schwann cell NF1 -/- with R816X mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information.  Schwann cell NF1 -/- with R816X mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",3a3e5460-3d5b-45f9-995d-25bd49c06f34,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Schwann cell NF1 -/- with WT tagged mNf1 cDNA,[From GFF:] This cell line is in development and not comprehensively characterized. Please contact the investigator for more information. Schwann cell NF1 -/- with WT tagged mNf1 cDNA,"","",FALSE,"",modelSystemName,"","","",3beebac1-95b0-4834-9008-19f7d268fc5b,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Schwann cell i28cNF NF1 -/- (#14),[From GFF:] Schwann cell i28cNF NF1 -/-  (#14),"","",FALSE,"",modelSystemName,"","","",8e9ec3f3-5622-4f8f-a02c-34d8777c82b6,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-ScienCell Schwann cells,[From ScienCell:] HSC from ScienCell Research Laboratories are isolated from human spinal nerve. (editorial note: these cells likely come from multiple donors),"","",FALSE,"",modelSystemName,"","","",b751b5d4-56e6-42a2-a2dc-289f90c6dd82,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-T265,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_S805,modelSystemName,"","","",T265,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-WT ES,[From GFF:] WT ES,"","",FALSE,"",modelSystemName,"","","",1097f821-56c3-4e51-bcd3-f84aef506e3a,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-YST-1,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_5192,modelSystemName,"","","",YST-1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-cNF00.10a,A primary cutaneous neurofibroma cell line; not broadly available. See the immortalized version (icNF00.10a).,"","",FALSE,"",modelSystemName,"","","",cNF00.10a,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-cNF04.9a,A primary cutaneous neurofibroma cell line; not broadly available. See the immortalized version (icNF04.9a).,"","",FALSE,"",modelSystemName,"","","",cNF04.9a,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-cNF97.2a,A primary cutaneous neurofibroma cell line; not broadly available. See the immortalized version (icNF97.2a).,"","",FALSE,"",modelSystemName,"","","",cNF97.2a,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-cNF97.2b,A primary cutaneous neurofibroma cell line; not broadly available. See the immortalized version (icNF97.2b).,"","",FALSE,"",modelSystemName,"","","",cNF97.2b,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-cNF98.4c,A primary cutaneous neurofibroma cell line; not broadly available. See the immortalized version (icNF98.4c).,"","",FALSE,"",modelSystemName,"","","",cNF98.4c,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-cNF98.4d,A primary cutaneous neurofibroma cell line; not broadly available. See the immortalized version (icNF98.4d).,"","",FALSE,"",modelSystemName,"","","",cNF98.4d,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipNF00.6,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI76,modelSystemName,"","","",hTERT NF1 ipNF00.6,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipNF03.3,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI77,modelSystemName,"","","",hTERT NF1 ipNF03.3,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipNF04.4,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI78,modelSystemName,"","","",hTERT NF1 ipNF04.4,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipNF05.5,plexiform neurofibroma cell line,"","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI71,modelSystemName,"","","",hTERT NF1 ipNF05.5,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipNF05.5 (Mixed clones),plexiform neurofibroma cell line,"","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI72,modelSystemName,"","","",hTERT NF1 ipNF05.5 (Mixed clones),Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipNF95.11b C,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI67,modelSystemName,"","","",hTERT NF1 ipNF95.11b C,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipNF95.11b C/T,plexiform neurofibroma cell line,"","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI68,modelSystemName,"","","",hTERT NF1 ipNF95.11b C/T,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipNF95.6,plexiform neurofibroma cell line,"","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI70,modelSystemName,"","","",hTERT NF1 ipNF95.6,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipn02.3 2λ,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI64,modelSystemName,"","","",hTERT NF1 ipn02.3 2λ,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipn06.2 A,plexiform neurofibroma cell line,"","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI74,modelSystemName,"","","",hTERT NF1 ipn06.2 A,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipnNF09.4,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI73,modelSystemName,"","","",hTERT NF1 ipnNF09.4,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 ipnNF95.11c,plexiform neurofibroma cell line,"","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI69,modelSystemName,"","","",hTERT NF1 ipnNF95.11c,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT NF1 sipnNF95.12B,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI75,modelSystemName,"","","",hTERT NF1 sipnNF95.12B,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT SC ipn02.8,plexiform neurofibroma cell line,"","",FALSE,https://web.expasy.org/cellosaurus/CVCL_UI65,modelSystemName,"","","",hTERT SC ipn02.8,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT SC ipn97.4,Healthy Schwann cells.,"","",FALSE,"",modelSystemName,"","","",13ae2445-21e3-4b75-ae70-317a3d5ee40c,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT ipn02.3 2λ,Derived from peripheral sciatic nerve from a donor without neurofibromatosis. No detectable NF1 mutation.,"","",FALSE,"",modelSystemName,"","","",3a507bfd-7d2b-4238-b79a-83fe985c2cea,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hTERT ipn02.8,Derived from peripheral nerve from a donor without neurofibromatosis. No detectable NF1 mutation.,"","",FALSE,"",modelSystemName,"","","",3a8f5be4-aa22-48f2-9a76-9412010ecd45,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hiPSC,human iPSCs,"","",FALSE,https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7773355,modelSystemName,"","","",hiPSC,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-hiPSC-SCP,Schwann cell precursor iPSCs,"","",FALSE,https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7773354,modelSystemName,"","","",hiPSC-SCP,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-human foreskin fibroblasts,"generic human foreskin fibroblasts, often used as a control cell in toxicology experiments","","",FALSE,Sage Bionetworks,modelSystemName,"","","",human foreskin fibroblasts,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-i28cNF,"An hTERT-immortalized cutaneous neurofibroma cell line derived from a primary cell culture, developed by Dr. Peggy Wallace.","","",FALSE,Sage Bionetworks,modelSystemName,"","","",i28cNF,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-i21cNF,"An hTERT-immortalized cutaneous neurofibroma cell line derived from a primary cell culture, developed by Dr. Peggy Wallace.","","",FALSE,Sage Bionetworks,modelSystemName,"","","",i21cNF,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-i18cNF,"An hTERT-immortalized cutaneous neurofibroma cell line derived from a primary cell culture, developed by Dr. Peggy Wallace.","","",FALSE,Sage Bionetworks,modelSystemName,"","","",i18cNF,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-cNF18.1a,"A primary cell culture from a cutaneous neurofibroma developed by Dr. Peggy Wallace.","","",FALSE,Sage Bionetworks,modelSystemName,"","","",cNF18.1a,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-cNF97.5,"A primary cell culture from a cutaneous neurofibroma developed by Dr. Peggy Wallace.","","",FALSE,Sage Bionetworks,modelSystemName,"","","",cNF97.5,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-cNF99.1,"A primary cell culture from a cutaneous neurofibroma developed by Dr. Peggy Wallace.","","",FALSE,Sage Bionetworks,modelSystemName,"","","",cNF99.1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-icNF99.1,"An hTERT-immortalized cutaneous neurofibroma cell line derived from a primary cell culture, developed by Dr. Peggy Wallace.","","",FALSE,Sage Bionetworks,modelSystemName,"","","",icNF99.1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-iPSC NF1 +/- BJFF.6 bkgd,[From GFF:] iPSC NF1 +/- BJFF.6 bkgd,"","",FALSE,"",modelSystemName,"","","",a0c91627-fad6-4d60-bf74-67623374eff8,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-iPSC NF1 WT,[From GFF:] iPSC NF1 WT BJFF.6 bkgd,"","",FALSE,"",modelSystemName,"","","",4cf14492-2735-4e31-ab6a-75554b9ad298,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-iPSC Y489C; Exon 13 cryptic splice,"[From GFF:] iPSC Y489C; Exon 13 cryptic splice, PGP1 cells","","",FALSE,"",modelSystemName,"","","",ad73cdb2-8add-48ff-b9f2-35a38132db84,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-icNF00.10a,An hTERT-immortalized cutaneous neurofibroma cell line derived from a primary cell culture (cNF00.10a).,"","",FALSE,"",modelSystemName,"","","",icNF00.10a,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-icNF04.9a,An hTERT-immortalized cutaneous neurofibroma cell line derived from a primary cell culture (cNF04.9a).,"","",FALSE,"",modelSystemName,"","","",icNF04.9a,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-icNF97.2a,An hTERT-immortalized cutaneous neurofibroma cell line derived from a primary cell culture (cNF97.2a).,"","",FALSE,"",modelSystemName,"","","",icNF97.2a,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-icNF97.2b,An hTERT-immortalized cutaneous neurofibroma cell line derived from a primary cell culture (cNF97.2b).,"","",FALSE,"",modelSystemName,"","","",icNF97.2b,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-icNF98.4c,An hTERT-immortalized cutaneous neurofibroma cell line derived from a primary cell culture (cNF98.4c).,"","",FALSE,"",modelSystemName,"","","",icNF98.4c,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-icNF98.4d,An hTERT-immortalized cutaneous neurofibroma cell line derived from a primary cell culture (cNF98.4d).,"","",FALSE,"",modelSystemName,"","","",icNF98.4d,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-sNF02.2,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_K280,modelSystemName,"","","",sNF02.2,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-sNF94.3,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_K164,modelSystemName,"","","",sNF94.3,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-sNF96.2,"","","",FALSE,https://web.expasy.org/cellosaurus/CVCL_K281,modelSystemName,"","","",sNF96.2,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-sc93.1,Cell line generated by Ray Mattingly's lab.,"","",FALSE,"",modelSystemName,"","","",sc93.1,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-NMS-2,"Malignant peripheral nerve sheath tumor cell line","","",FALSE,"https://www.cellosaurus.org/CVCL_4662",modelSystemName,"","","",NMS-2,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HS-PSS,"Malignant peripheral nerve sheath tumor cell line","","",FALSE,"https://www.cellosaurus.org/CVCL_8717",modelSystemName,"","","",HS-PSS,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-HS-Sch-2,"Malignant peripheral nerve sheath tumor cell line","","",FALSE,"https://www.cellosaurus.org/CVCL_8718",modelSystemName,"","","",HS-Sch-2,Class,Biosample,Model_System,Cell_Line_Model,"","",""
-Neurofibromatosis type 1,"(NF1) - A disease characterized by patches of skin pigmentation (cafe-au-lait spots), Lisch nodules of the iris, tumors in the peripheral nervous system and fibromatous skin tumors. Individuals with the disorder have increased susceptibility to the development of benign and malignant tumors.","","",FALSE,"",diagnosis,,"","",Neurofibromatosis_Type_1,Class,Biosample,Diagnosis,"","","",""
-Neurofibromatosis type 2,"(NF2) - Genetic disorder characterized by bilateral vestibular schwannomas (formerly called acoustic neuromas), schwannomas of other cranial and peripheral nerves, meningiomas, and ependymomas. It is inherited in an autosomal dominant fashion with full penetrance.","","",FALSE,https://www.ebi.ac.uk/ols/ontologies/cco/terms?iri=http%3A%2F%2Fidentifiers.org%2Fomim%2F101000,diagnosis,,"","",Neurofibromatosis_Type_2,Class,Biosample,Diagnosis,"","","",""
-Schwannomatosis,A rare genetic disorder characterized by the presence of multiple schwannomas.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/ncit/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FNCIT_C6557,diagnosis,,"","",Schwannomatosis,Class,Biosample,Diagnosis,"","","",""
-Not Applicable,"An NF diagnosis (e.g. NF1, NF2, or Schwannomatosis) does not apply here.","","",FALSE,"",diagnosis,,"","",Not_Applicable,Class,Biosample,Diagnosis,"","","",""
-Sporadic Schwannoma,A,"","",,"",diagnosis,,"","",Sporadic_Schwannoma,Class,Biosample,Diagnosis,"","","",""
-cancer,"","","",FALSE,"","",,"","","",Class,Biosample,Disease,"","","",""
-neuro,"","","",FALSE,"","",,"","","",Class,Biosample,Disease,"","","",""
-neurofibromatosis,"","","",FALSE,"","",,"","","",Class,Biosample,Disease,"","","",""
--/-,Homozygous deletion or mutation of NF1.,"","",FALSE,Sage Bionetworks,nf1Genotype,,"","",NF1_Homozygous_Deletion_Mutation,Class,Biosample,Genotype,NF1_Genotype,"","",""
-+/-,Heterozygous deletion or mutation,"","",FALSE,Sage Bionetworks,nf1Genotype,,"","",NF1_Heterozygous_Deletion_Mutation,Class,Biosample,Genotype,NF1_Genotype,"","",""
-+/+,Homozygous wildtype,"","",FALSE,Sage Bionetworks,nf1Genotype,,"","",NF1_Wildtype,Class,Biosample,Genotype,NF1_Genotype,"","",""
-Unknown,unknown,"","",FALSE,Sage Bionetworks,nf1Genotype,,"","",NF1_Unknown_Genotype,Class,Biosample,Genotype,NF1_Genotype,"","",""
--/-,Homozygous deletion or mutation of NF2.,"","",FALSE,Sage Bionetworks,nf2Genotype,,"","",NF2_Homozygous_Deletion_Mutation,Class,Biosample,Genotype,NF2_Genotype,"","",""
-+/-,Heterozygous deletion or mutation,"","",FALSE,Sage Bionetworks,nf2Genotype,,"","",NF2_Heterozygous_Deletion_Mutation,Class,Biosample,Genotype,NF2_Genotype,"","",""
-+/+,Homozygous wild type,"","",FALSE,Sage Bionetworks,nf2Genotype,,"","",NF2_Wildtype,Class,Biosample,Genotype,NF2_Genotype,"","",""
-Unknown,unknown,"","",FALSE,Sage Bionetworks,nf2Genotype,,"","",NF2_Unknown_Genotype,Class,Biosample,Genotype,NF2_Genotype,"","",""
-R816X,"A pathogenic mutation in the NF1 gene (amino acid nomenclature) leading to a truncated protein","","",FALSE,Sage Bionetworks,nf1Variant,,"","",R816X,Class,Biosample,Genotype,NF1_Genotype,"","",""
-Polymeric nanoparticles,"Polymeric nanoparticles (PNPs) are solid and spherical (in most cases) structures prepared from natural or synthetic polymers with drug delivery being known to be one of the most important biomedical applications (reference: Hirvonen et al., Nanoengineered Biomaterials for Advanced Drug Delivery, 2020)","","",FALSE,"",,materialType,"","",Polymeric_Nanoparticles,Class,Sample,Material,"","","",""
-DNA,"DNA (deoxyribonucleic acid) is a polymer of nucleotides and is the genetic material in organisms and some viruses.","","",FALSE,"",,materialType,"","",DNA,Class,Sample,Material,"","","",""
-C57BL/6J,C57BL/6 is the most widely used inbred strain. It is commonly used as a general purpose strain and background strain for the generation of congenics carrying both spontaneous and induced mutations.,"","",FALSE,https://www.jax.org/strain/000664,modelSystemName,,"","",C57BL/6J,Class,Biosample,Model_System,Mouse_Model,"","",""
-NOD scid gamma,"These mice are most often referred to using their branded name NSG™ and are extremely immunodeficient.","","",FALSE,https://www.jax.org/strain/005557,modelSystemName,,"","",NOD_scid_gamma,Class,Biosample,Model_System,Mouse_Model,"","",""
-NRG,"Extremely immunodeficient mice with a targeted knockout mutation in recombination activating gene 1 (Rag1) and a complete null allele of the IL2 receptor common gamma chain.","","",FALSE,https://www.jax.org/strain/007799,modelSystemName,,"","",NRG,Class,Biosample,Model_System,Mouse_Model,"","",""
-B6;129S2-Trp53tm1Tyj Nf1tm1Tyj/J,"","","",FALSE,https://www.jax.org/strain/008191,modelSystemName,,"","",B6;129S2-Trp53tm1Tyj Nf1tm1Tyj/J,Class,Biosample,Model_System,Mouse_Model,"","",""
-B6;129-Trp53tm1Tyj Nf1tm1Tyj Suz12Gt(Betageo)1Khe/KcichJ,"","","",FALSE,https://www.jax.org/strain/027678,modelSystemName,,"","",B6;129-Trp53tm1Tyj Nf1tm1Tyj Suz12Gt(Betageo)1Khe/KcichJ,Class,Biosample,Model_System,Mouse_Model,"","",""
-B6.129S2-Nf1tm1Tyj/J,"","","",FALSE,https://www.jax.org/strain/008192,modelSystemName,,"","",B6.129S2-Nf1tm1Tyj/J,Class,Biosample,Model_System,Mouse_Model,"","",""
-B6.129S1-Nf1tm1Cbr/J,"","","",FALSE,https://www.jax.org/strain/007923,modelSystemName,,"","",B6.129S1-Nf1tm1Cbr/J,Class,Biosample,Model_System,Mouse_Model,"","",""
-B6.129(Cg)-Nf1tm1Par/J,"","","",FALSE,https://www.jax.org/strain/017640,modelSystemName,,"","",B6.129(Cg)-Nf1tm1Par/J,Class,Biosample,Model_System,Mouse_Model,"","",""
-Prss56Cre;R26mT,"Prss56Cre;R26mT is a transgenic non-human animal model for Neurofibromatosis type 1, wherein the Nf1 gene is specifically inactivated in BC cells and derivatives thereof.","","",FALSE,https://patents.google.com/patent/EP3420811A1/en,modelSystemName,,"","",Prss56Cre;R26mT,Class,Biosample,Model_System,Mouse_Model,"","",""
-Nf1-OPG,"","","",FALSE,"",modelSystemName,,"","",Nf1-OPG,Class,Biosample,Model_System,Mouse_Model,"","",""
-Nf1-OPG-Arg816,"","","",FALSE,"",modelSystemName,,"","",Nf1-OPG-Arg816,Class,Biosample,Model_System,Mouse_Model,"","",""
-Male,"A person who belongs to the sex that normally produces sperm. The term is used to indicate biological sex distinctions, cultural gender role distinctions, or both.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C20197,sex,,"","",Male,Class,Biosample,Sex,"","","",""
-Female,"A person who belongs to the sex that normally produces ova. The term is used to indicate biological sex distinctions, or cultural gender role distinctions, or both.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C16576,sex,,"","",Female,Class,Biosample,Sex,"","","",""
-Unknown,"Not known, observed, recorded; or reported as unknown by the data contributor.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C17998,sex,,"","",Unknown_Sex,Class,Biosample,Sex,"","","",""
-Homo sapiens,Homo sapiens with taxonomy ID: 9606 and Genbank common name: human,"","",FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=9606&lvl=3&lin=f&keep=1&srchmode=1&unlock,species,,"","",Human,Class,Biosample,Species,Species,"","",""
-Mus musculus,Mus musculus with taxonomy ID: 10090 and Genbank common name: house mouse,"",modelSystemName,FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=10090&lvl=3&lin=f&keep=1&srchmode=1&unlock,species,,"","",Mouse,Class,Biosample,Species,Species,"","",""
-Mus musculus (humanized),Mus musculus with taxonomy ID: 10090 and Genbank common name: house mouse,"",modelSystemName,FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=10090&lvl=3&lin=f&keep=1&srchmode=1&unlock,species,,"","",Humanized_Mouse,Class,Biosample,Species,Species,"","",""
-Rattus norvegicus,Rattus with taxonomy ID:10116 and Genbank common name: Norway rat,"",modelSystemName,FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=10116&lvl=3&lin=f&keep=1&srchmode=1&unlock,species,,"","",Rat,Class,Biosample,Species,Species,"","",""
-Drosophila melanogaster,Drosophila melanogaster with taxonomy ID: 7227 and Genbank common name: fruit fly,"",modelSystemName,FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=7227&lvl=3&p=has_linkout&p=blast_url&p=genome_blast&p=mapview&lin=f&keep=1&srchmode=1&unlock,species,,"","",Fruitfly,Class,Biosample,Species,Species,"","",""
-Rhesus macaque,Macaca mulatta with taxonomy ID: 9544 and Genbank common name: Rhesus monkey,"","",FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=9544&lvl=3&p=has_linkout&p=blast_url&p=genome_blast&p=mapview&lin=f&keep=1&srchmode=1&unlock,species,,"","",Rhesus_Monkey,Class,Biosample,Species,Species,"","",""
-Pan troglodytes,Pan troglodytes with taxonomy ID: 9598 and Genbank common name: chimpanzee,"","",FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=9598&lvl=3&lin=f&keep=1&srchmode=1&unlock,species,,"","",Chimpanzee,Class,Biosample,Species,Species,"","",""
-Gallus gallus,"The common domestic fowl, Chicken.","","",FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=9031,species,,"","",Chicken,Class,Biosample,Species,Species,"","",""
-Sus scrofa,Sus scrofa with taxonomy ID: 9823 and Genbank common name: pig,"",modelSystemName,FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=9823,species,,"","",Pig,Class,Biosample,Species,Species,"","",""
-Oryctolagus cuniculus,Oryctolagus cuniculus with taxonomy ID: 9986 and Genbank common name: rabbit,"",modelSystemName,FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=9986&lvl=3&lin=f&keep=1&srchmode=1&unlock,species,,"","",Rabbit,Class,Biosample,Species,Species,"","",""
-Danio rerio,Danio rerio with taxonomy ID: 7955 and Genbank common name: zebrafish,"",modelSystemName,FALSE,https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=7955&lvl=3&lin=f&keep=1&srchmode=1&unlock,species,,"","",Zebrafish,Class,Biosample,Species,Species,"","",""
-Human,"","","",FALSE,"",transplantationRecipientSpecies,,"","",Human,Class,Biosample,Species,"","","",""
-Mouse,"","","",FALSE,"",transplantationRecipientSpecies,,"","",Mouse,Class,Biosample,Species,"","","",""
-10x_v2,"","","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,dissociationMethod,,"","","",Class,Biosample,Specimen_Processing,Dissociation_Method,"","",""
-FACS,"","","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,dissociationMethod,,"","",FACS,Class,Biosample,Specimen_Processing,Dissociation_Method,"","",""
-Fluidigm C1,"","","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,dissociationMethod,,"","","",Class,Biosample,Specimen_Processing,Dissociation_Method,"","",""
-drop-seq,"","","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,dissociationMethod,,"","",Drop-Seq,Class,Biosample,Specimen_Processing,Dissociation_Method,"","",""
-inDrop,"","","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,dissociationMethod,,"","",InDrop,Class,Biosample,Specimen_Processing,Dissociation_Method,"","",""
-mouth pipette,"","","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,dissociationMethod,,"","",Mouth_Pipette,Class,Biosample,Specimen_Processing,Dissociation_Method,"","",""
-enzymatic,"","","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,dissociationMethod,,"","",Enzymatic,Class,Biosample,Specimen_Processing,Dissociation_Method,"","",""
-mechanical,"","","",FALSE,https://github.com/HumanCellAtlas/metadata-schema/blob/master/json_schema/type/process/sequencing/library_preparation_process.json,dissociationMethod,,"","",Mechanical,Class,Biosample,Specimen_Processing,Dissociation_Method,"","",""
-Viably frozen,"","","",FALSE,"",specimenPreparationMethod,,"","",Viably_Frozen,Class,Biosample,Specimen_State,Specimen_State,"","",""
-nerve tissue,"Portion of tissue in the nervous system which consists of neurons and glial cells, and may also contain parts of the vasculature.","","",FALSE,https://www.ebi.ac.uk/ols/ontologies/uberon/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FUBERON_0003714,tissue,,"","",Nerve_Tissue,Class,Biosample,Tissue,"","","",""
-optic nerve,The nerve that carries messages from the retina to the brain.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C12761,tissue,,"","",Optic_Nerve,Class,Biosample,Tissue,"","","",""
-serum,Liquid derived from blood plasma that has clotting factors removed.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/uberon/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FUBERON_0001977,tissue,,"","",Serum,Class,Biosample,Tissue,"","","",""
-plasma,"Plasma is the fluid (noncellular) portion of the circulating blood, as distinguished from the serum that is the fluid portion of the blood obtained by removal of the fibrin clot and blood cells after coagulation.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C13356,tissue,,"","",Plasma,Class,Biosample,Tissue,"","","",""
-splenocyte,Any leukocyte that is part of a spleen.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/cl/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FCL_2000074,tissue,,"","",Splenocyte,Class,Biosample,Tissue,"","","",""
-blood,A fluid that is composed of blood plasma and erythrocytes.,"","",FALSE,https://www.ebi.ac.uk/ols/ontologies/uberon/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FUBERON_0000178,tissue,,"","",Blood,Class,Biosample,Tissue,"","","",""
-primary tumor,"A primary tumor is the tumor at the initial site of cancer, not where the cancer may have spread or metastasized, called the secondary tumor.","",tumorType,FALSE,https://cancergenome.nih.gov/cancersselected/biospeccriteria,tissue,,"","",Primary_Tumor,Class,Biosample,Tissue,"","","",""
-embryonic tissue,A portion of tissue that is part of an embryo.,"","",FALSE,http://purl.obolibrary.org/obo/UBERON_0005291,tissue,,"","",Embryonic_Tissue,Class,Biosample,Tissue,"","","",""
-meninges,The three thin layers of tissue that cover and protect the brain and spinal cord.,"","",FALSE,https://www.ncbi.nlm.nih.gov/pubmedhealth/PMHT0024758/,tissue,,"","",Meninges,Class,Biosample,Tissue,"","","",""
-bone marrow,"The soft, fatty, vascular tissue that fills most bone cavities and is the source of red blood cells and many white blood cells.","","",FALSE,http://purl.obolibrary.org/obo/BTO_0000141,tissue,,"","",Bone_Marrow,Class,Biosample,Tissue,"","","",""
-Buccal Mucosa,"The mucosal membranes located on the inside of the cheek, in the buccal cavity.The inner lining of the cheeks.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C12505,tissue,,"","",Buccal_Mucosa,Class,Biosample,Tissue,"","","",""
-Dorsal Root Ganglion,Ganglion with sensory function within the vertebral column.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C12462,tissue,,"","",Dorsal_Root_Ganglion,Class,Biosample,Tissue,"","","",""
-cerebral cortex,"The outer layer of the cerebrum composed of neurons and unmyelinated nerve fibers. It is responsible for memory, attention, consciousness and other higher levels of mental function.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C12443,tissue,,"","",Cerebral_Cortex,Class,Biosample,Tissue,"","","",""
-sciatic nerve,"The longest single nerve that is formed by the merging of the ventral rami of the L4, L5, and S1 in the pelvis and passes down the lower limb where it divides into the common peroneal and tibial nerves","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C52810,tissue,,"","",Sciatic_Nerve,Class,Biosample,Tissue,"","","",""
-unspecified,Unspecified tissue or tissues from an organ.,"","",FALSE,Sage Bionetworks,tissue,,"","","","",Biosample,Tissue,"","","",""
-whole brain,Brain tissue not limited to a specific region.,"","",FALSE,Sage Bionetworks,tissue,,"","",Whole_Brain_Tissue,Class,Biosample,Tissue,"","","",""
-Buffy Coat,The middle layer of an anticoagulated blood specimen following separation by centrifugation. It contains most of the white blood cells and platelets.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C84507,tissue,,"","",Buffy_Coat,Class,Biosample,Tissue,"","","",""
-normal,No pathological entity observable.,"","",FALSE,http://purl.obolibrary.org/obo/MPATH_458,"",,"","",Normal,Class,Biosample,Tissue,"","","",""
-connective tissue,"","","",FALSE,"",tissue,,"","",Connective_Tissue,Class,Biosample,Tissue,"","","",""
-tumor-adjacent normal,Tissue comprised of morphologically normal tissue collected from the area immediately surrounding a tumor.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C164032,tissue,,"","",Tumor_Adjacent_Normal,Class,Biosample,Tissue,"","","",""
-PDX tissue,Patient derived xenograft tissue,"","",FALSE,"",tissue,,"","",PDX_Tissue,Class,Biosample,Tissue,"","","",""
-CDX tissue,Cell line derived xenograft tissue,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C156443,tissue,,"","",CDX_Tissue,Class,Biosample,Tissue,"","","",""
-organoid,Organoids are three-dimensional cell culture models that self-organize into complex organ-like tissues.,"","",FALSE,https://www.nature.com/articles/s41378-020-00185-3,tissue,,"","",Organoid,Class,Biosample,Tissue,"","","",""
-spheroid,"Spheroids are 3D culture systems that can be used to model multicellular tumors; more broadly, spheroids can be defined as cell aggregates cultured on nonadherent substrates.","","",FALSE,https://www.nature.com/articles/s41378-020-00185-3,tissue,,"","",Spheroid,Class,Biosample,Tissue,"","","",""
-microtissue,"Microtissue usually refers to the microtissue formed by the aggregation of seed cells under the action of cell-cell or cell-extracellular matrix (ECM). Compared with traditional cell monolayer culture, cells are cultivated into a three-dimensional microstructure in a specific way. The microstructure characteristics of microtissue are similar to natural tissues and can promote cell proliferation and differentiation.","","",FALSE,https://doi.org/10.1089/ten.teb.2020.0370,tissue,,"","",Microtissue,Class,Biosample,Tissue,"","","",""
-retina,"A light-sensitive membrane that lines the back wall of the eyeball. The retina is continuous with the optic nerve and this way transmits optical images to the brain. [ NCI ]","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C12343,tissue,,"","",retina,Class,Biosample,Tissue,"","","",""
-Teratoma,TT,"","",FALSE,ONCOTREE,tumorType,,"","",Teratoma,Class,Biosample,Tumor,Tumor,"","",""
-Cutaneous Neurofibroma,A neurofibroma that grows along small branches of nerves in the dermis in patients with neurofibromatosis. It presents as a solid cutaneous tumor.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C128451,tumorType,,"","",Cutaneous_Neurofibroma,Class,Biosample,Tumor,Tumor,"","",""
-Subcutaneous Neurofibroma,A neurofibroma that occurs along the peripheral nerves beneath the skin.,"","",FALSE,"",tumorType,,"","",Subcutaneous_Neurofibroma,Class,Biosample,Tumor,Tumor,"","","Not in NCIT, but see https://nyulangone.org/conditions/neurofibromatosis/types"
-Plexiform Neurofibroma,"An elongated and multinodular neurofibroma, formed when the tumor involves either multiple trunks of a plexus or multiple fascicles of a large nerve, such as the sciatic. Some plexiform neurofibromas resemble a bag of worms, others produce a massive ropy enlargement of the nerve.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C3797,tumorType,,"","",Plexiform_Neurofibroma,Class,Biosample,Tumor,Tumor,"","",""
-Atypical Neurofibroma,A neurofibroma characterized by the presence of cellular pleomorphism.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C41426,tumorType,,"","",Atypical_Neurofibroma,Class,Biosample,Tumor,Tumor,"","",""
-Malignant Peripheral Nerve Sheath Tumor,MPNST,"","",FALSE,ONCOTREE,tumorType,,"","",Malignant_Peripheral_Nerve_Sheath_Tumor,Class,Biosample,Tumor,Tumor,"","",""
-Glioma,"A benign or malignant brain and spinal cord tumor that arises from glial cells (astrocytes, oligodendrocytes, ependymal cells). Tumors that arise from astrocytes are called astrocytic tumors or astrocytomas. Tumors that arise from oligodendrocytes are called oligodendroglial tumors. Tumors that arise from ependymal cells are called ependymomas.","","",FALSE,http://purl.obolibrary.org/obo/MONDO_0021042,tumorType,,"","",Glioma,Class,Biosample,Tumor,Tumor,"","",""
-Low-Grade Glioma NOS,LGGNOS,"","",FALSE,ONCOTREE,tumorType,,"","",Low_Grade_Glioma_NOS,Class,Biosample,Tumor,Tumor,"","",""
-Pilocytic Astrocytoma,PAST,"","",FALSE,ONCOTREE,tumorType,,"","",Pilocytic_Astrocytoma,Class,Biosample,Tumor,Tumor,"","",""
-Atypical Pilocytic Astrocytoma,"Pilocytic astrocytoma with atypical features.","","",FALSE,Sage Bionetworks,tumorType,,"","",Atypical_Pilocytic_Astrocytoma,Class,Biosample,Tumor,Tumor,"","",""
-Pilomyxoid Astrocytoma,PMA,"","",FALSE,ONCOTREE,tumorType,,"","",Pilomyxoid_Astrocytoma,Class,Biosample,Tumor,Tumor,"","",""
-Diffuse Astrocytoma,DA,"","",FALSE,ONCOTREE,tumorType,,"","",Diffuse_Astrocytoma,Class,Biosample,Tumor,Tumor,"","",""
-Glioblastoma Multiforme,GBM,"","",FALSE,ONCOTREE,tumorType,,"","",Glioblastoma_Multiforme,Class,Biosample,Tumor,Tumor,"","",""
-Anaplastic Pilocytic Astrocytoma,Pilocytic astrocytoma with anaplastic features exhibits a spectrum of morphologies and is associated with decreased survival when compared with typical PA.,"","",FALSE,https://doi.org/10.1097/pas.0b013e3181c75238,tumorType,,"","",Anaplastic_Pilocytic_Astrocytoma,Class,Biosample,Tumor,Tumor,"","",""
-Pleomorphic Xanthoastrocytoma,PXA,"","",FALSE,ONCOTREE,tumorType,,"","",Pleomorphic_Xanthoastrocytoma,Class,Biosample,Tumor,Tumor,"","",""
-Oligoastrocytoma,OAST,"","",FALSE,ONCOTREE,tumorType,,"","",Oligoastrocytoma,Class,Biosample,Tumor,Tumor,"","",""
-High-Grade Glioma NOS,HGGNOS,"","",FALSE,ONCOTREE,tumorType,,"","",High_Grade_Glioma_NOS,Class,Biosample,Tumor,Tumor,"","",""
-Unknown,"A tumor of unknown origin, or tumor type missing. ","","",FALSE,Sage Bionetworks,tumorType,,"","",Unknown,Class,Biosample,Tumor,Tumor,"","",""
-Anaplastic Astrocytoma,AASTR,"","",FALSE,ONCOTREE,tumorType,,"","",Anaplastic_Astrocytoma,Class,Biosample,Tumor,Tumor,"","",""
-Glioblastoma,GB,"","",FALSE,ONCOTREE,tumorType,,"","",Glioblastoma,Class,Biosample,Tumor,Tumor,"","",""
-Schwannoma,SCHW,"","",FALSE,ONCOTREE,tumorType,,"","",Schwannoma,Class,Biosample,Tumor,Tumor,"","",""
-Meningioma,MNG,"","",FALSE,ONCOTREE,tumorType,,"","",Meningioma,Class,Biosample,Tumor,Tumor,"","",""
-Massive Soft Tissue Neurofibroma,"Massive soft tissue neurofibroma is characterized  by local infiltration and extension to multiple nerve branches,  as well as substantial overgrowth of adjacent soft tissue and  skin, which distinguishes it from its more benign variant, plexiform neurofibroma. With striking presentation and  severe dysmorphism, massive soft tissue neurofibroma is also labeled elephantiasis neuromatosa. Although considered benign it  shares similarities with malignant peripheral nerve sheath  tumors such as local infiltration and cell mitogenesis. Massive soft tissue neurofibroma is associated with significant morbidity and mortality and almost no response to  conventional chemotherapy and radiotherapy. Surgery is eventually pursued, although bleeding may be a life-threatening  complication as massive soft tissue neurofibromas are highly  vascularized.","","",FALSE,https://doi.org/10.1177%2F0883073815571635,tumorType,,"","",Massive_Soft_Tissue_Neurofibroma,Class,Biosample,Tumor,Tumor,"","",""
-Diffuse Infiltrating Neurofibroma,"Diffuse infiltrating neurofibroma can present as slow-growing, soft tissue masses with overlying skin thickening. These le-sions infiltrate the dermis and the subcutaneous tissue and  characteristically spread along the connective tissues enveloping islands of normal fat. Some of these lesions develop fatty proliferation and can mimic lipomas,  angiolipomas, or angiomyolipomas on imaging and histological evaluation ","","",FALSE,https://doi.org/10.1007/s00256-014-1965-8,tumorType,,"","",Diffuse_Infiltrating_Neurofibroma,Class,Biosample,Tumor,Tumor,"","",""
-Localized Neurofibroma,"","","",FALSE,JHU Biobank,tumorType,,"","",Localized_Neurofibroma,Class,Biosample,Tumor,Tumor,"","",""
-Neurofibroma with Degenerative Atypia,"","","",FALSE,JHU Biobank,tumorType,,"","",Neurofibroma_With_Degenerative_Atypia,Class,Biosample,Tumor,Tumor,"","",""
-Neurofibroma,NFIB,"","",FALSE,"",tumorType,,"","",Neurofibroma,Class,Biosample,Tumor,Tumor,"","",""
-Anaplastic Pleomorphic Xanthoastrocytoma,APXA,"","",FALSE,ONCOTREE,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Ganglioglioma,GNG,"","",FALSE,ONCOTREE,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Anaplastic Ganglioglioma,AGNG,"","",FALSE,ONCOTREE,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Optic Pathway Glioma,A glioma that affects the optic nerve. This condition can be seen in association with neurofibromatosis 1. It is most commonly seen in the pediatric age group.,"","",FALSE,https://ncit.nci.nih.gov/ncitbrowser/ConceptReport.jsp?dictionary=NCI_Thesaurus&ns=ncit&code=C4537,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Not Applicable,"","","",FALSE,Sage Bionetworks,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Colorectal Adenocarcinoma,(COADREAD) The most common type of colorectal carcinoma. It is chararactized by the presence of malignant glandular epithelial cells invading through the muscularis mucosa into the submucosa.,"","",FALSE,obo:NCIT_C5105,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Colorectal Carcinoma,A malignant epithelial neoplasm that arrises from the colon or rectum and invates through the muscularis mucosa into the submucosa. 95 percent of colorectal carcinoma are colorectal adenocarcinoma -- use this more specific term if it applies.,"","",FALSE,obo:NCIT_C2955,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Recurrent MPNST,The reemergence of malignant peripheral nerve sheath tumor after a period of remission.,"","",FALSE,obo:NCIT_C8823,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Juvenile Myelomonocytic Leukemia,(JMML) A myelodysplastic/myeloproliferative neoplasm of childhood that is characterized by proliferation principally of the granulocytic and monocytic lineages,"","",FALSE,obo:NCIT_C9233,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Sarcoma,"(SARCNOS) An usually aggressive malignant neoplasm of the soft tissue or bone...Representative subtypes are liposarcoma, leiomyosarcoma, osteosarcoma, and chondrosarcoma.","","",FALSE,obo:NCIT_C9118,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Fibromatosis,A poorly circumscribed neoplasm arising from the soft tissues. It is characterized by the presence of spindle-shaped fibroblasts and an infiltrative growth pattern.,"","",FALSE,obo:NCIT_C3042,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Fibrosarcoma,(FIBS) A malignant mesenchymal fibroblastic neoplasm affecting the soft tissue and bone.,"","",FALSE,obo:NCIT_C3043,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Necrotic Neoplasm,A neoplasm characterized by focal or diffuse tumor cell necrosis.,"","",FALSE,obo:NCIT_C36029,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-Hemorrhagic Neoplasm,A neoplasm with hemorrhagic findings.,"","",FALSE,Sage Bionetworks,tumorType,,"","","",Class,Biosample,Tumor,"","","",This is based after the NCIT term 'Necrotic Neoplasm' to accomodate records using only 'hemorrhage' for tumor description -- it may be of limited usefulness long-term.
-NF1-Associated Tumor,Unspecified NF1-associated tumor; use a more specific tumor classification if available.,"","",FALSE,Sage Bionetworks,tumorType,,"","","",Class,Biosample,Tumor,"","","",This was added to accomodate records that only specified 'NF1' and is patterned after the existence of the NCIT term 'NF1-Associated Malignant Peripheral Nerve Sheath Tumor'
-NF2-Associated Tumor,Unspecified NF2-associated tumor; use a more specific tumor classification if available.,"","",FALSE,Sage Bionetworks,tumorType,,"","","",Class,Biosample,Tumor,"","","",This was added to accomodate records that only specified 'NF2' and is patterned after the existence of the NCIT term 'NF1-Associated Malignant Peripheral Nerve Sheath Tumor'
-ANNUBP,"Atypical neurofibromatous neoplasms of uncertain biologic potential is a provisional classification for lesions displaying at least two features: atypia, loss of neurofibroma architecture, high cellularity, and/or mitotic activity >1/50 but <3/10 high power fields. They can be inconsistently diagnosed as atypical neurofibroma or low-grade MPNST. See https://pubmed.ncbi.nlm.nih.gov/28551330/.","","",FALSE,Sage Bionetworks,tumorType,,"","","",Class,Biosample,Tumor,"","","",""
-tumor,"General term for tumor sample – use when it is unknown when a more specific clinical classification is unknown, e.g. whether it is primary or secondary.","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C18009,tissue,,"","",Tumor,Class,Biosample,Tumor,"","","",""
-metastatic tumor,"For neoplasms, a non-infiltrating and non-metastasizing neoplastic process that is characterized by the absence of morphologic features associated with malignancy (e.g., severe atypia, nuclear pleomorphism, tumor cell necrosis, and abnormal mitoses).","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C14172,tissue,,"","",Metastatic_Tumor,Class,Biosample,Tumor,"","","",""
-metastatic/recurrent tumor,A tumor with metastatic/recurrent characteristic.,"","",FALSE,"",tissue,,"","",Metastatic_Recurrent_Tumor,Class,Biosample,Tumor,"","","",""
-recurrent tumor,A tumor described with recurrent characteristic.,"","",FALSE,http://purl.obolibrary.org/obo/NCIT_C4798,tissue,,"","",Recurrent_Tumor,Class,Biosample,Tumor,"","","",""
-Melanoma,"A malignant, usually aggressive tumor composed of atypical, neoplastic melanocytes. Most often, melanomas arise in the skin (cutaneous melanomas) and include the following histologic subtypes: superficial spreading melanoma, nodular melanoma, acral lentiginous melanoma, and lentigo maligna melanoma. Cutaneous melanomas may arise from acquired or congenital melanocytic or dysplastic nevi. Melanomas may also arise in other anatomic sites including the gastrointestinal system, eye, urinary tract, and reproductive system. Melanomas frequently metastasize to lymph nodes, liver, lungs, and brain. [ NCI ]","","",FALSE,http://purl.obolibrary.org/obo/NCIT_C3224,tissue,,"","",Melanoma,Class,Biosample,Tumor,"","","",""
-Nodular Neurofibroma,TBD,"","",FALSE,,tissue,,"","",Nodular_Neurofibroma,Class,Biosample,Tumor,"","","",""
-tumorType,The type of tumor that the biospecimen used to generate the data were collected from.,"Teratoma, Cutaneous Neurofibroma, Subcutaneous Neurofibroma, Plexiform Neurofibroma, Atypical Neurofibroma, Malignant Peripheral Nerve Sheath Tumor, Glioma, Low-Grade Glioma NOS, Pilocytic Astrocytoma, Atypical Pilocytic Astrocytoma, Pilomyxoid Astrocytoma, Diffuse Astrocytoma, Glioblastoma Multiforme, Anaplastic Pilocytic Astrocytoma, Pleomorphic Xanthoastrocytoma, Oligoastrocytoma, High-Grade Glioma NOS, Unknown, Anaplastic Astrocytoma, Glioblastoma, Schwannoma, Meningioma, Massive Soft Neurofibroma, Diffuse Infiltrating Neurofibroma, Localized Neurofibroma, Neurofibroma with Degenerative Atypia, Neurofibroma, Anaplastic Pleomorphic Xanthoastrocytoma, Ganglioglioma, Anaplastic Ganglioglioma, Optic Pathway Glioma, Not Applicable,Colorectal Carcinoma,Recurrent MPNST,Juvenile Myelomonocytic Leukemia,Sarcoma,Fibromatosis,Fibrosarcoma,Necrotic Neoplasm,Hemorrhagic Neoplasm,NF1-Associated Tumor,NF2-Associated Tumor,Melanoma","",FALSE,Sage Bionetworks,cancer,,,"",tumorType,Property,Biosample,annotationProperty,biosampleAnnotation,Tumor,"",""
-diagnosis,A diagnosis is the result of a medical investigation to identify a disorder from its signs and symptoms.,"Neurofibromatosis type 1, Neurofibromatosis type 2, Schwannomatosis, Unknown, Not Applicable, Sporadic Schwannoma","",FALSE,"",experimentalData,,,"",diagnosis,Property,Biosample,annotationProperty,"",Diagnosis,one,Currently a single NF diagnosis allowed; in the future multiple diagnoses may be allowed for comorbidities.
-bodyPart,"Sample location referring to a named area of the body, inclusive of gross anatomical structures and organ parts. ","head, neck, scalp, leg, pelvis, mesentery, axilla, acetabulum, forearm, muscle, finger, thoracic spine, groin, back, iliac spine, spine, shoulder, scapula, lymph node, kidney, skin, mammary gland, nerves, brain, blood, breast, colon, lung, liver, prostate, pancreas, ovary, spleen, bone marrow, Bursa Of Fabricius, nose","",FALSE,"",experimentalData,,,"",bodyPart,Property,Biosample,annotationProperty,"",Body_Part,"",""
-organ,A unique macroscopic (gross) anatomic structure that performs specific functions. It is composed of various tissues. An organ is part of an anatomic system or a body region.,"lymph node, kidney, skin, mammary gland, nerves, brain, blood, breast, colon, lung, liver, prostate, pancreas, ovary, spleen, bone marrow, Bursa Of Fabricius, nose, Eye","",FALSE,"",experimentalData,,,"",organ,Property,Biosample,annotationProperty,"",Organ,"",""
-individualIdSource,Database or repository to which individual ID maps,"","",FALSE,"",experimentalData,,,"",individualIdSource,Property,Biosample,annotationProperty,"","","",""
-tissue,A tissue is a mereologically maximal collection of cells that together perform physiological function.,"nerve tissue,optic nerve,serum,plasma,splenocyte,blood,primary tumor,embryonic tissue,meninges,bone marrow,Buccal Mucosa,Dorsal Root Ganglion,unspecified,whole brain,Buffy Coat,cerebral cortex,sciatic nerve,connective tissue,tumor-adjacent normal, PDX tissue, CDX tissue, metastatic/recurrent tumor, recurrent tumor, metastatic tumor, organoid, spheroid, microtissue, retina","",FALSE,"",experimentalData,,,"",tissueType,Property,Biosample,annotationProperty,"",Tissue,"",""
-isCellLine,Whether or not sample source is a cell line (Yes; No),"Yes, No","",FALSE,"",experimentalData,,,"",isCellLine,DataProperty,Biosample,annotationProperty,"","","",""
-isPrimaryCell,Whether or not cellType is primary (Yes; No),"Yes, No","",FALSE,"",experimentalData,,,"",isPrimaryCell,DataProperty,Biosample,annotationProperty,"","","",""
-cellType,A cell type is a distinct morphological or functional form of cell.,"Schwann cell precursor, B-lymphocytes, Embryonic stem cells, iPSC, iPSC-derived telencephalic organoids, GABAergic neurons, monocytes, microglia, macrophages, astrocytes, SH-SY5Y, GLUtamatergic neurons, NeuN+, NeuN-, epithelial, epithelial-like, fibroblast, round, lymphoblast, CD8+ T-Cells, arachnoid, meningioma, schwannoma, oligodendrocyte, schwann, iPSC-derived neuron, iPSC-derived glia, iPSC-derived astrocytes, monocyte-derived microglia, iPSC-derived neuronal progenitor cell, CD138+, CNON, teratoma, cultured Muller glia, DRG/nerve root neurosphere cell","",FALSE,"",experimentalData,,,list like,cellType,DataProperty,Biosample,annotationProperty,"",Cell,"",""
-isMultiIndividual,Whether or not a file has data for multiple individuals (Yes; No),"Yes, No","",TRUE,"",experimentalData,,,"",isMultiIndividual,DataProperty,Biosample,annotationProperty,"","","",""
-isMultiSpecimen,Whether or not a file has data for multiple specimens (Yes; No),"Yes, No","",TRUE,"",experimentalData,,,"",isMultiSpecimen,DataProperty,Biosample,annotationProperty,"","","",""
-sex,"Phenotypic expression of chromosomal makeup that defines a study subject as male, female, or other.","Male, Female, Unknown","",FALSE,http://purl.obolibrary.org/obo/NCIT_C28421,experimentalData,,,"",sex,Property,Biosample,annotationProperty,"",Sex,"",""
-species,The name of a species (typically a taxonomic group) of organism.,"Homo sapiens,Mus musculus,Mus musculus (humanized),Rattus norvegicus,Drosophila melanogaster,Rhesus macaque,Pan troglodytes,Gallus gallus,Sus scrofa,Oryctolagus cuniculus,Danio rerio","",TRUE,"",experimentalData,,,"",species,Property,Biosample,annotationProperty,"",Species,one,""
-individualID,A unique identifier (non-PII) that represents the individual from which the data came. This could be a patient or animal ID.,"","sex,age,ageUnit,species,diagnosis,nf1Genotype,nf2Genotype",FALSE,"",experimentalData,,,"",individualID,Property,Biosample,annotationProperty,"","",many,"Typically annotated with a single ID, but many allowed for, e.g. a clinical dataset that contains endpoint data for an entire cohort."
-parentSpecimenID,"A unique identifier (non-PII) that represents the parent specimen (sample) from which the data came from, e.g. the single parent tumor. The parentSpecimenIDcan be the same as specimenID when there is no subsectioning.","","specimenID,aliquotID,organ,tissue,isCellLine,isPrimaryCell,cellType,tumorType,specimenPreparationMethod,modelSystemName",FALSE,"","",,,"","",Property,Biosample,annotationProperty,"","","",""
-specimenID,"A unique identifier (non-PII) that represents the subspecimen (subsample) from which the data came, e.g. an ID that distinguishes between different parts of the same parent tumor specimen. This can be the A A unique identifier (non-PII) that represents the","","",FALSE,"",experimentalData,,,"",specimenID,Property,Biosample,annotationProperty,"","",many,"Typically annotated with a single ID, but many allowed for summary data."
-specimenIDSource,"Optional annotation describing where the specimen ID source derived from, e.g. the biobank providing samples or a providing lab.","","",FALSE,"","",,,"","",Property,Biosample,annotationProperty,"","","",This is not officially part of the template and only used as needed.
-aliquotID,A unique identifier (non-PII) that represents the aliquots used for e.g. replicate runs. This is linked to the specimenID.,"","",FALSE,"","",,,"","",Property,Biosample,annotationProperty,"","","",""
-modelSystemName,"A group of presumed common ancestry with clear-cut physiological but usually not morphological distinctions such as an animal model or cell line. EXAMPLE(S):  HEK293 (cell line), Minnesota5 (swine strain), DXL (poultry strain), RB51 (vaccine strain of Brucella abortus)","28cNF,3PNF_FiPSsv_PM_2,3PNF_SiPSsv_MM_11,5PNF_TDiPSsv_MM_4,5PNF_TDiPSsv_PM_6,6PNF_SiPSrv_PM_2,7PNF_SiPSrv_PM_12,90-8,AC007-hTERT,BJFF.6,Ben-Men-1,Dh5 alpha,Dhh-Cre; NF1Arg681*/flox Schwann Cells,ELK-TAD Luciferase Reporter HEK293 Stable,ELK-TAD Luciferase Reporter HEK293 Stable NF1 -/-,Fb93.1,GM11601,GM11602,GM23338,HBE135-E6E7,HEK293,HEK293 NF1 -/- Exon 17 #A15 G629R cryptic splice,HEK293 NF1 -/- Exon 17 #B48 G629R cryptic splice,HEK293 NF1 -/- Exon 47 insT #14,HEK293 NF1 -/- Exon 52 R2550X #5,HEK293 NF1 -/- clone 2,HEK293 NF1 -/- with R1306X mNf1 cDNA,HEK293 NF1 -/- with R192X mNf1 cDNA,HEK293 NF1 -/- with R1947X mNf1 cDNA,HEK293 NF1 -/- with R2550X mNf1 cDNA,HEK293 NF1 -/- with R461X mNf1 cDNA,HEK293 NF1 -/- with R681X mNf1 cDNA,HEK293 NF1 -/- with R816X mNf1 cDNA,HEK293 NF1 -/- with WT mNf1 cDNA,HEK293 NF1 -/- with WT tagged mNf1 cDNA,HeLa SilenciX NF1,JH-2-002-CL,JH-2-079-CL,JH-2-103-CL,JHU 2-002-CL,JHU 2-002-PDX,JHU 2-079-CL,JHU 2-079-PDX,JHU 2-103-CL,JHU 2-103-PDX,KCL024,KCL025,Lis42_NF1_1N,Lis47_NF1_2N,M3 MPNST,NCC-MPNST1-C1,NCC-MPNST2-C1,NCC-MPNST3-C1,NCC-MPNST3-X2-C1,NCC-MPNST4-C1,NCC-MPNST5-C1,NF1,NF1-R68X Embryonic cells,NF2-/- AC007-hTERT,Nf1-/- Epithelial lung cells,Nf1-/- HEK 293,Nf1-/- skin-derived precursor cells,Nf1Arg681*/+ ES,Nf1Arg681*/Arg681* ES,Nf1Arg681*/Arg681* MEFs,Nf2-/- Schwann SC (mouse) (PMID26554010),S462,S462.TY,S520,SC4 [Mouse schwannoma],ST88-14,STS-26T,SZ-NF1,SZ-NF2,SZ-NF4,Schwann cell NF1 -/- (iPN97.4 #24),Schwann cell NF1 -/- with R681X mNf1 cDNA,Schwann cell NF1 -/- with R816X mNf1 cDNA,Schwann cell NF1 -/- with WT tagged mNf1 cDNA,Schwann cell i28cNF NF1 -/- (#14),ScienCell Schwann cells,T265,WT ES,YST-1,cNF00.10a,cNF04.9a,cNF97.2a,cNF97.2b,cNF98.4c,cNF98.4d,hTERT NF1 ipNF00.6,hTERT NF1 ipNF03.3,hTERT NF1 ipNF04.4,hTERT NF1 ipNF05.5,hTERT NF1 ipNF05.5 (Mixed clones),hTERT NF1 ipNF95.11b C,hTERT NF1 ipNF95.11b C/T,hTERT NF1 ipNF95.6,hTERT NF1 ipn02.3 2λ,hTERT NF1 ipn06.2 A,hTERT NF1 ipnNF09.4,hTERT NF1 ipnNF95.11c,hTERT NF1 sipnNF95.12B,hTERT SC ipn02.8,hTERT SC ipn97.4,hTERT ipn02.3 2λ,hTERT ipn02.8,hiPSC,hiPSC-SCP,human foreskin fibroblasts,i28cNF,i21cNF,i18cNF,cNF18.1a,cNF97.5,cNF99.1,icNF99.1,iPSC NF1 +/- BJFF.6 bkgd,iPSC NF1 WT,iPSC Y489C; Exon 13 cryptic splice,icNF00.10a,icNF04.9a,icNF97.2a,icNF97.2b,icNF98.4c,icNF98.4d,sNF02.2,sNF94.3,sNF96.2,sc93.1,HSS-PS,HS-Sch-2,NMS-2,C57BL/6J,NOD scid gamma,NRG,B6;129S2-Trp53tm1Tyj Nf1tm1Tyj/J,B6;129-Trp53tm1Tyj Nf1tm1Tyj Suz12Gt(Betageo)1Khe/KcichJ,B6.129S2-Nf1tm1Tyj/J,B6.129S1-Nf1tm1Cbr/J,B6.129(Cg)-Nf1tm1Par/J,Prss56Cre;R26mT,Nf1-OPG,Nf1-OPG-Arg816,HS-PSS","",FALSE,http://purl.obolibrary.org/obo/NCIT_C94171,neuro,,,list like,modelSystemName,Property,Biosample,annotationProperty,annotationProperty,Model_System,"",""
-nf2Genotype,"Genotype of NF2 gene in the biospecimen from which the data were derived, if known","-/-, +/-, +/+, +/?, -/?, Unknown","",FALSE,"",neurofibromatosis,,,"",nf2Genotype,Property,Biosample,annotationProperty,"",Genotype,"",""
-nf1Genotype,"Genotype of NF1 gene in the biospecimen from which the data were derived, if known","-/-, +/-, +/+, +/?, -/?, Unknown","",FALSE,"",neurofibromatosis,,,"",nf1Genotype,Property,Biosample,annotationProperty,"",Genotype,"",""
-nf1Variant,"Variant (mutation) in the NF1 gene/protein in the biospecimen from which the data were derived, if known/applicable.","R816X,E178X,L578P,R1276Q,R1513X,V1621R,R2237X,Y2264X6","",FALSE,"",neurofibromatosis,,,"",nf1Mutation,Property,Biosample,annotationProperty,"",Genotype,"",See https://www.hgmd.cf.ac.uk/docs/mut_nom.html#general for nomenclature.
-specimenPreparationMethod,"Term that represents preservation of the sample before usage in, e.g. sequencing","Fresh collected, Flash frozen, FFPE, Cryopreserved, OCT, RNAlater, formalin-fixed, ethanol, Viably frozen","",FALSE,https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=sample&anchor=preservation_method,ngs,,,"",specimenPreparationMethod,Property,Biosample,annotationProperty,"",Specimen_State,"",""
-age,A numeric value representing age of the individual. Use with ageUnit.,"",ageUnit,FALSE,Sage Bionetworks,"",,,num,age,DataProperty,Biosample,annotationProperty,biosampleAnnotation,"","",""
-ageUnit,"A time unit that can be used with a given age value, e.g. years.","days, months, years","",FALSE,Sage Bionetworks,"",,,"",ageUnit,Property,Biosample,annotationProperty,biosampleAnnotation,"","",""
-bioSampleUsed,The biosample used.,"","",,"","",,,"","","","","","","","",""
-isXenograft,Whether or not sample source is a xenograft (Yes; No),"Yes, No","",FALSE,"",experimentalData,,,"",isXenograft,DataProperty,Biosample,annotationProperty,"","","",""
-sourceName," identifies the source from where the sample is derived. If the sample assayed is a nanoparticle sample or some chemical substance not derived from a biological material, then the corresponding source name should refer to the starting sample that was modified by a protocol for the assay.","","",TRUE,"",sourceName,,,"",sourceName,Property,Sample,annotationProperty,"","","",""
-sampleType,Type of sample,"","",FALSE,"",sampleType,,,"",molecularSpecies,Property,Sample,annotationProperty,"","","",Not used directly in template since each template already implicitly assumes either a biospecimen sample or chemical sample; this is a super-property for organization purposes
-materialType,Type of material in the characterization,"nanoparticles,polymeric nanoparticles,small molecule,DNA","",FALSE,"",sampleType,,,"",materialType,Property,Material,annotationProperty,"","","",""
-pH,Numeric value for pH sample parameter,"","",FALSE,"",parameter,,,"",pH,Property,Sample,annotationProperty,"","","",""
-concentrationMaterial,Numeric value for concentration of the material,"","",FALSE,"",parameter,,,"",concentration,DataProperty,Sample,annotationProperty,"","","",""
-concentrationMaterialUnit,"Unit used for the material concentration, e.g. mg/mL","mg/mL,mM,particles/mL","",FALSE,"",parameter,,,"",concentrationUnit,Property,Sample,annotationProperty,"","","",""
-concentrationNaCl,Numeric value for NaCl concentration,"","",FALSE,"",parameter,,,"",concentrationNaCl,DataProperty,Sample,annotationProperty,"","","",""
-concentrationNaClUnit,"Unit used for the NaCl concentration, e.g. mM","mg/mL,mM","",FALSE,"",parameter,,,"",concentrationNaClUnit,Property,Sample,annotationProperty,"","","",""
-Component,"Category of metadata manifest; provide the same one for all items/rows.",,,TRUE,https://w3id.org/biolink/vocab/category,,,,,,,,,,,,
-genomicsAssayTemplateNormalized,"Generic template for describing raw data from a genomic type assay (RNA-seq, Exome-seq, etc) WITHOUT full individual and biospecimen data. To link individual and biospecimen metadata, an additional “biospecimenTemplate_Default” must be additionally completed with either specimenID or aliquotID available for joining. This is a two-step template.",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,specimenID,aliquotID,runType,libraryPrep,comments",TRUE,Sage Bionetworks,template,,,,Genomics_Assay_Template_Normalized,Class,Template,Template,Assay_Template,,,
-genomicsAssayTemplate,"Generic denormalized template for describing raw data from a genomic type assay (RNA-seq, Exome-seq, etc) along with individual, biospecimen and experimental metadata. This is a one-step template.",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,isXenograft,transplantationType,transplantationRecipientSpecies,transplantationRecipientTissue,runType,libraryPrep,comments",TRUE,Sage Bionetworks,template,,,,Genomics_Assay_Template,Class,Template,Template,Assay_Template,,,
-genomicsAssayTemplateExtended,"Template for describing raw data from a genomic type assay (RNA-seq, Exome-seq, etc) with extended properties for capturing additional metadata such as gene perturbation parameters or experimental conditions and time points. This is a one-step template.",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,isXenograft,transplantationType,transplantationRecipientSpecies,transplantationRecipientTissue,experimentalCondition,experimentalTimepoint,runType,libraryPrep,genePerturbed,comments",TRUE,Sage Bionetworks,template,,,,Genomics_Assay_Template_Extended,Class,Template,Template,Assay_Template,,,
-WGSTemplate,"Template for describing raw data from Whole Genome Sequencing (WGS)",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,runType,libraryPrep,comments",TRUE,Sage Bionetworks,template,,,,WGS_Template,Class,Template,Template,Assay_Template,,,
-WESTemplate,"Template for describing raw data from Whole Exome Sequencing (WES)",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,runType,targetCaptureKitID,libraryPrep,comments",TRUE,Sage Bionetworks,template,,,,WES_Template,Class,Template,Template,Assay_Template,,,
-RNASeqTemplate,"Template for describing raw data from (bulk) RNA-sequencing",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,isXenograft,transplantationType,transplantationRecipientSpecies,transplantationRecipientTissue,runType,libraryPrep,targetDepth,comments",TRUE,Sage Bionetworks,template,,,,RNA_Seq_Template,Class,Template,Template,Assay_Template,,,
-ScRNASeqTemplate,"Template for describing raw data from single-cell RNA-sequencing (scRNA-seq)",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,isXenograft,transplantationType,transplantationRecipientSpecies,transplantationRecipientTissue,runType,libraryPrep,comments",TRUE,Sage Bionetworks,template,,,,ScRNA_Seq_Template,Class,Template,Template,Assay_Template,,,
-ProcessedAlignedReadsTemplate,"Template for describing aligned reads output data (i.e. BAM)",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,averageInsertSize,averageReadLength,averageBaseQuality,pairsOnDifferentChr,readsDuplicatedPercent,readsMappedPercent,meanCoverage,proportionCoverage10x,proportionCoverage30x,readDepth,totalReads,workflow,genomicReference,comments",TRUE,Sage Bionetworks,template,,,,Processed_Aligned_Reads_Template,Class,Template,Template,Assay_Template,,,
-ProcessedVariantCallsTemplate,"Template for describing either germline or variant calls output data (i.e. VCF/MAF)",,"Component,Filename,resourceType,progressReportNumber,specimenID,dataType,assay,individualID,isFilteredReads,workflow,comments",TRUE,Sage Bionetworks,template,,,,Processed_Variant_Calls_Template,Class,Template,Template,Assay_Template,,,
-ProcessedExpressionTemplate,"Template for describing expression output data",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,individualID,specimenID,parentSpecimenID,modelSystemName,workflow,expressionUnit,comments",TRUE,Sage Bionetworks,template,,,,Processed_Expression_Template,Class,Template,Template,Assay_Template,,,
-imagingAssayTemplate,"Generic template for describing data from an imaging type assay (IHC, etc). This is a one-step template.",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,assayTarget,individualID,parentSpecimenID,comments",TRUE,Sage Bionetworks,template,,,,Imaging_Assay_Template,Class,Template,Template,Assay_Template,,,
-imagingAssayTemplateExtended,"Template for describing data from an imaging type assay (IHC, etc) with extended properties for capturing additional metadata such as gene perturbation parameters or experimental conditions and time points. This is a one-step template.",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,assayTarget,individualID,parentSpecimenID,experimentalCondition,experimentalTimepoint,genePerturbed,comments",TRUE,Sage Bionetworks,template,,,,Imaging_Assay_Template_Extended,Class,Template,Template,Assay_Template,,,
-MRIAssayTemplate,Generic template for describing data from an MRI assay. This is a one-step template.,,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,experimentalCondition,experimentalTimepoint,MRISequence,comments",TRUE,Sage Bionetworks,template,,,,MRI_Assay_Template,Class,Template,Template,Assay_Template,,,
-epigeneticsAssayTemplate,Generic template for describing data from an epigenetics assay. This is a one-step template.,,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,experimentalCondition,experimentalTimepoint,libraryPrep,comments",TRUE,Sage Bionetworks,template,,,,Epigenetics_Assay_Template,Class,Template,Template,Assay_Template,,,
-pharmacokineticsAssayTemplate,Generic template for describing data from a pharmacokinetics assay. This is a one-step template.,,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,assayTarget,individualID,parentSpecimenID,experimentalCondition,experimentalTimepoint,genePerturbed,comments",TRUE,Sage Bionetworks,template,,,,Pharmacokinetics_Assay_Template,Class,Template,Template,Assay_Template,,,
-proteomicsAssayTemplate,Generic template for describing data from a proteomics assay. Note that specialized proteomics assays may have their own template to capture more detailed information. This is a one-step template.,,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,experimentalCondition,experimentalTimepoint,proteinExtractSource,comments ",TRUE,Sage Bionetworks,template,,,,Proteomics_Assay_Template,Class,Template,Template,Assay_Template,,,
-plateBasedReporterAssayTemplate,Generic template for describing data from a plate-based reporter assay. This is a one-step template.,,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,assayTarget,individualID,parentSpecimenID,experimentalCondition,experimentalTimepoint,reporterGene,reporterSubstance,comments",TRUE,Sage Bionetworks,template,,,,Plate_Based_Reporter_Assay_Template,Class,Template,Template,Assay_Template,,,
-patientTimepointsTemplate,Template for capturing individual-level metadata with time points. Do not use for data file annotation.,,"Component,individualID,experimentalTimepoint",TRUE,Sage Bionetworks,template,,,,Patient_Timepoints_Template,Class,Template,Template,Non_Assay_Template,,,
-clinicalAssayTemplate,"Annotation template for simple endpoint data from clinical assays often used in diagnostic practice or clinical trials; may include repeated measures and a treatment/intervention context. Examples include bloodwork results (creatine assay, serum antibody assay), tumor size measurements, or medication adherence. Note that clinical data are from human individuals, therefore species should be “human”.  ",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,experimentalCondition,experimentalTimepoint,comments",TRUE,Sage Bionetworks,template,,,,Clinical_Assay_Template,Class,Template,Template,Assay_Template,,,
-clinicalAssayTemplateExtended,Annotation template for simple endpoint data from clinical assays often used in diagnostic practice or clinical trials; may include repeated measures and a treatment/intervention context. Extended to capture additional drug/treatment parameters.,,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,experimentalCondition,experimentalTimepoint,compoundName,compoundDose,comments",TRUE,Sage Bionetworks,template,,,,Clinical_Assay_Template_Extended,Class,Template,Template,Assay_Template,,,
-behavioralAssayTemplate,"Generic template for describing data from behavioral assays such as “adaptive n-back task” (for humans) or “shock-probe defensive burying test” (for mice). If another modality is used as part of the behavioral assay, e.g. fMRI, that data can be linked.",,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,experimentalCondition,experimentalTimepoint,comments",TRUE,Sage Bionetworks,template,,,,Behavioral_Assay_Template,Class,Template,Template,Assay_Template,,,
-sourceCodeTemplate,Template for describing scripts or source code files for a software application.,,"Component,Filename,resourceType,programmingLanguage,documentation,runtimePlatform,comments",TRUE,Sage Bionetworks,template,,,,Source_Code_Template,Class,Template,Template,Non_Assay_Template,,,
-protocolTemplate,Template for describing a protocol document. (BETA) Adapted from https://bioschema.org/profiles/LabProtocol/0.6-DRAFT-2020_12_08,,"Component,Filename,resourceType,author,citation,license,comments",TRUE,Sage Bionetworks,template,,,,Protocol_Template,Class,Template,Template,Non_Assay_Template,,,
-pdxGenomicsAssay,Template for describing PDX assay data that extends genomicsAssay.,,"Component,Filename,resourceType,progressReportNumber,dataType,assay,platform,individualID,parentSpecimenID,experimentalCondition,experimentalTimepoint,transplantationType,genePerturbed,runType,libraryPrep,comments",TRUE,Sage Bionetworks,template,,,,PDX_Genomics_Assay_Template,Class,Template,Template,Assay_Template,,,
-updateMilestoneReport,Defines a metadata template for updating milestone report values in NF studies -- currently a supported feature for NTAP and GFF.,,"Component,Filename,resourceType,progressReportNumber",FALSE,Sage Bionetworks,template,,,,Update_Milestone_Report,Class,Template,Template,Non_Assay_Template,,,
-template,Parent attribute for the manifest template attributes.,,,FALSE,Sage Bionetworks,template,,,,Template,Class,Template,Template,,,,
-individualTemplate,Base template for minimal information describing individual-level data within the NF scope. Not called “patientTemplate_Default” because individuals can be a non-human organism.,"individualID,sex,age,ageUnit,species,diagnosis,nf1Genotype,nf2Genotype","Component,individualID,sex,age,ageUnit,species,diagnosis,nf1Genotype,nf2Genotype",FALSE,Sage Bionetworks,template,,,,Individual_Template,Class,Template,Template,Non_Assay_Template,,,
-biospecimenTemplateNormalized,Base template for describing biospecimen-level data.,"parentSpecimenID,specimenID,aliquotID,organ,tissue,isCellLine,isPrimaryCell,cellType,tumorType,specimenPreparationMethod,modelSystemName","Component,parentSpecimenID,specimenID,aliquotID,organ,tissue,isCellLine,isPrimaryCell,cellType,tumorType,specimenPreparationMethod,modelSystemName",FALSE,Sage Bionetworks,template,,,,Biospecimen_Template_Normalized,Class,Template,Template,Non_Assay_Template,,,
-biospecimenTemplate,Denormalized template for describing biospecimen data that includes all individual-level data as well.,,"Component,individualID,parentSpecimenID",FALSE,Sage Bionetworks,template,,,,Biospecimen_Template,Class,Template,Template,Non_Assay_Template,,,
-dataFileComponent,Template component for describing a data file resource that extends fileTemplate_Default with required properties dataType and dataSubtype.,"Filename,entityId,fileFormat,resourceType,dataType,dataSubtype","Filename,entityId,fileFormat,resourceType,dataType,dataSubtype",FALSE,Sage Bionetworks,template,,,,Data_File_Component,Class,Template,TemplateComponent,,,,
-experimentComponent,Template component for describing core experimental parameters.,"experimentalCondition,experimentalTimepoint","experimentalCondition,experimentalTimepoint",FALSE,Sage Bionetworks,template,,,,Experiment_Component,Class,Template,TemplateComponent,,,,
-genePerturbComponent,Template component for adding genetic perturbation metadata. This applies only to some assays and does not make sense with e.g. behavioral assays.,"genePerturbed,genePerturbationType,genePerturbationTechnology","genePerturbed,genePerturbationType,genePerturbationTechnology",FALSE,Sage Bionetworks,template,,,,Gene_Perturb_Component,Class,Template,TemplateComponent,,,,
-fileComponent,Template component for describing some file on the NF-OSI Synapse platform.,"Filename,entityId,fileFormat,resourceType","Filename,entityId,fileFormat,resourceType",FALSE,Sage Bionetworks,template,,,,File_Component,Class,Template,TemplateComponent,,,,
-ngsComponent,Template component capturing Next Gen Sequencing/genomics attributes.,"runType,readPair,isStranded,readPairOrientation,readStrandOrigin,libraryPrep,libraryPreparationMethod,dissociationMethod,readLength,nucleicAcidSource","runType,readPair,isStranded,readPairOrientation,readStrandOrigin,libraryPrep,libraryPreparationMethod,dissociationMethod,readLength,nucleicAcidSource",FALSE,Sage Bionetworks,template,,,,NGS_Component,Class,Template,TemplateComponent,,,,
-LightScatteringAssayTemplate,"Template for dynamic or static light scattering data adapted from ISA-TAB-Nano specs (https://wiki.nci.nih.gov/display/icr/isa-tab-nano)",,"Component,Filename,resourceType,dataType,assay,materialType,specimenID,pH,concentrationMaterial,concentrationMaterialUnit,concentrationNaCl,concentrationNaClUnit,comments",FALSE,Sage Bionetworks,template,,,,Light_Scattering_Assay_Template,Class,Template,Template,,,,
-FlowCytometryTemplate,"Basic template for flow cytometry assay",,"Component,Filename,resourceType,dataType,assay,platform,individualID,specimenID,cellType,experimentalCondition,comments",FALSE,Sage Bionetworks,template,,,,FACS_Template,Class,Template,Template,,,,