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added new publications to the docs (#7185)
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hotzenklotz authored Jul 6, 2023
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35 changes: 33 additions & 2 deletions docs/publications.md
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# Publications
The following publications used WEBKNOSSOS for exploring large 3D electron-microscopy (EM) and light-microscopy (LM) datasets as well as collaboratively generating annotations or other tasks. Please [get in touch with us](mailto:[email protected]) if your publication is missing.

## 2023
* Tri M. Nguyen, Logan A. Thomas, Jeff L. Rhoades, Ilaria Ricchi, Xintong Cindy Yuan, Arlo Sheridan, David G. C. Hildebrand, Jan Funke, Wade G. Regehr & Wei-Chung Allen Lee.
Structured cerebellar connectivity supports resilient pattern separation.
[Nature (2023). DOI: 10.1038/s41586-022-05471-w](https://doi.org/10.1038/s41586-022-05471-w)

* Wan Qing Yu, Rachael Swanstrom, Crystal L. Sigulinsky, Richard M. Ahlquist, Sharm Knecht, Bryan W. Jones, David M. Berson & Rachel O. Wong.
Distinctive synaptic structural motifs link excitatory retinal interneurons to diverse postsynaptic partner types.
[Cell Reports (2023). DOI: 10.1016/j.celrep.2023.112006](https://doi.org/10.1016/j.celrep.2023.112006)

* Kun Song, Zhihui Feng & Moritz Helmstaedter.
High-contrast en bloc staining of mouse whole-brain and human brain samples for EM-based connectomics.
[Nature Methods (2023). DOI: 10.1101/2022.03.30.486341](https://doi.org/10.1101/2022.03.30.486341)

* Tri Nguyen, Mukul Narwani, Mark Larson, Yicong Li, Shuhan Xie, Hanspeter Pfister, Donglai Wei, Nir Shavit, Lu Mi, Alexandra Pacureanu, Wei-Chung Lee & Aaron T. Kuan.
The XPRESS Challenge: Xray Projectomic Reconstruction -- Extracting Segmentation with Skeletons.
[arXiv (2023). DOI: 10.48550/arXiv.2302.03819](https://doi.org/10.48550/arXiv.2302.03819)


## 2022
* Sahil Loomba, Jakob Straehle, Vijayan Gangadharan, Natalie Heike, Abdelrahman Khalifa, Alessandro Motta, Niansheng Ju, Meike Sievers, Jens Gempt, Hanno S. Meyer & Moritz Helmstaedter.
Connectomic comparison of mouse and human cortex.
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* Yuxin Zhang, Tobias Ackels, Alexandra Pacureanu, Marie-Christine Zdora, Anne Bonnin, Andreas T. Schaefer, Carles Bosch.
Sample preparation and warping accuracy for correlative multimodal imaging in the mouse olfactory bulb using 2-photon, synchrotron X-ray and volume electron microscopy.
[bioRxiv (2022) DOI: 10.1101/2022.02.18.481045](https://doi.org/10.1101/2022.02.18.481045)
[Frontiers in Cell and Development al Biology (2022). DOI: 10.3389/fcell.2022.880696](https://doi.org/10.3389/fcell.2022.880696)

* Daniela Chequer Charan, Yunfeng Hua, Haoyu Wang, Wenqing Huang, Fangfang Wang, Ana Belén Elgoyhen, Kevin M Boergens & Mariano N Di Guilmi.
Volume electron microscopy reveals age-related circuit remodeling in the auditory brainstem.
[Frontiers in Cellular Neuroscience (2022). DOI: 10.3389/fncel.2022.1070438](https://doi.org/10.3389/fncel.2022.1070438)

* Yong Fan, Chenhui Huang, Juan Chen, Yanyan Chen, Yan Wang, Zhiguang Yan , Weina Yu, Haibo Wu, Ying Yang, Leit ong Nie, Sijia Huang, Fangfang Wang, H aoyu Wang, Yunfeng Hua, Qifeng Lyu, Yanping Kuang & Ming Lei.
Mutations in CCIN cause teratozoospermia and male infertility.
[Science Bulletin (2022). DOI: 10.1016/j.scib.2022.09.026](https://doi.org/10.1016/j.scib.2022.09.026)

* Anthony Santella, Irina Kolotuev, Caroline Kizilyaprak & Zhirong Bao.
Cross-modality synthesis of EM time series and live fluorescence imaging.
[Elife (2022). DOI: 10.7554/eLife.77918](https://doi.org/10.7554/eLife.77918)
[**View data**](https://wklink.org/1322) in WEBKNOSSOS


## 2021
* Anjali Gour, Kevin M. Boergens, Natalie Heike, Yunfeng Hua, Philip Laserstein,Kun Song & Moritz Helmstaedter.
* Anjali Gour, Kevin M. Boergens, Natalie Heike, Yunfeng Hua, Philip Laserstein, Kun Song & Moritz Helmstaedter.
Postnatal connectomic development of inhibition in mouse barrel cortex.
[Science (2021) DOI: 10.1126/science.abb4534.](http://dx.doi.org/10.1126/science.abb4534)
[**View data**](https://webknossos.org/publication/601801b6d77f39e121656acf) in WEBKNOSSOS.
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5 changes: 3 additions & 2 deletions docs/tracing_ui.md
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![An overview of the WEBKNOSSOS annotation UI highlighting the 4 main sections of the interface](images/tracing_ui_overview.jpeg)

[Read More About Skeleton Annotation](./skeleton_annotation.md)
[Read More About Volume Annotation](./volume_annotation.md)
Read More About [Skeleton Annotation](./skeleton_annotation.md)

Read More About [Volume Annotation](./volume_annotation.md)

## The Toolbar

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