Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Update gene-product-information-gpi-format-20.md #694

Merged
merged 1 commit into from
Dec 19, 2024
Merged

Update gene-product-information-gpi-format-20.md #694

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
6 changes: 3 additions & 3 deletions _docs/gene-product-information-gpi-format-20.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -46,7 +46,7 @@ The GPI 2.0 file comprises 11 tab-delimited fields. For fields that multiple val
| 5 | **[Object Type](#5-db-object-type "Definition and requirements for DB Object Type (column 5)")** | 1 | PR:000000001| SO:0000704 | PR:000000001| GO:0032991 | SO:0000276
| 6 | **[Object Taxon](#6-db-object-taxon "Definition and requirements for DB Object Taxon (column 6)")** | 1 | NCBITaxon:9606| NCBItaxon:6239| NCBITaxon:9606| NCBITaxon:559292 |  NCBITaxon:9606|
| 7 | [Encoded by](#7-encoded-by "Definition and requirements for Encoded by (column 7)") | 0 or > | HGNC:17810 | | HGNC:17810 | |HGNC:31532 |
| 8 | [Canonical object ID](#8-parent-protein "Definition and requirements for Canonical object ID (column 8)") | 0 for complexes; 1 for other entities | UniProtKB:Q4VCS5 | WB:WBGene00000007 | UniProtKB:Q4VCS5 | | RNAcentral:URS0000527F89_9606 |
| 8 | **[Canonical object ID](#8-parent-protein "Definition and requirements for Canonical object ID (column 8)")** | 1 | UniProtKB:Q4VCS5 | WB:WBGene00000007 | UniProtKB:Q4VCS5 | SGD:S000217643 | RNAcentral:URS0000527F89_9606 |
| 9 | [Protein Complex Members](#9-protein-containing-complex-members "Definition and requirements for Protein Containing Complex Members (column 9)") | 0 or > | | | |SGD:S000003821 \|<br/>SGD:S000001456 \|<br/>SGD:S000005047|  |
| 10 | [Cross-reference(s)](#10-db-xrefs "Definition and requirements for DB_Xref(s) (column 10)") | 0 or > | NCBIGene:154796 \|<br/>ENSEMBL:ENSG00000126016 | UniProtKB:Q22397 | NCBIGene:154796 \|<br/>ENSEMBL:ENSG00000126016 | ComplexPortal:CPX-1016 |  ENSG00000276365 | 
| 11 | [Gene Product Properties](#11-gene-product-properties "Definition and requirements for Gene Product Properties (column 11)") | 0 or > | db_subset=Swiss-Prot| | |  | 
Expand Down Expand Up @@ -96,8 +96,8 @@ SGD feature type named ORF in SGD --->
* Cardinality = 0, 1, > 1; for cardinality > 1, values must be pipe-separated.

#### 8. Canonical object ID
* When the **DB:Object_ID** in Column 1 describes a protein isoform or a modified protein, this column refers to the gene-centric reference protein accession of the column 1 entry. If the **DB:Object_ID** in Column 1 corresponds to a gene-centric reference protein accession, then this value is repeated in Column 8. Together, the unique values in Column 8 correspond to the full set of genes encoded by the organism.
* Cardinality = 0 got protein complexes, 1 for all other object types.
* When the **DB:Object_ID** in Column 1 describes a protein isoform or a modified protein, this column refers to the gene-centric reference protein accession of the column 1 entry. If the **DB:Object_ID** in Column 1 corresponds to a gene-centric reference protein accession or a protein complex, then this value is repeated in Column 8. Together, the unique values in Column 8 correspond to the full set of genes encoded by the organism.
* Cardinality = 1.

#### 9. Protein-Containing Complex Members
* When the **DB:Object_ID** in Column 1 describes a protein-containing complex, this column contains the gene-centric reference protein accessions.
Expand Down