The BRAIN Initiative Cell Census Network Data Ecosystem: A User’s Guide

BICCN Data Ecosystem Collaboration, Hawrylycz, Michael, Martone, Maryann, Hof, Patrick, Lein, Ed, Regev, Aviv, Ascoli, Giorgio, Bjaalie, Jan, Dong, Hong-Wei, Ghosh, Satrajit, Gillis, Jesse, Hertzano, Ronna, Haynor, David, Kim, Yongsoo, Liu, Yufeng, Miller, Jeremy, Mitra, Partha, Mukamel, Eran, Osumi-Sutherland, David, Peng, Hanchuan, Ray, Patrick, Sanchez, Raymond, Ropelewski, Alex, Scheuermann, Richard, Tan, Shawn, Tickle, Timothy, Tilgner, Hagen, Varghese, Merina, Wester, Brock, White, Owen, Aevermann, Brian, Allemang, David, Ament, Seth, Athey, Thomas, Baker, Pamela, Baker, Cody, Baker, Katherine, Bandrowski, Anita, Bishwakarma, Prajal, Carr, Ambrose, Chen, Min, Choudhury, Roni, Cool, Jonah, Creasy, Heather, D'Orazi, Florence, Degatano, Kylee, Dichter, Benjamin, Ding, Song-Lin, Dolbeare, Tim, Ecker, Joseph, Fang, Rongxin, Fillion-Robin, Jean-Christophe, Fliss, Timothy, Gee, James, Gillespie, Tom, Gouwens, Nathan, Halchenko, Yaroslav, Harris, Nomi, Herb, Brian, Hintiryan, Houri, Hood, Gregory, Horvath, Sam, Jarecka, Dorota, Jiang, Shengdian, Khajouei, Farzaneh, Kiernan, Elizabeth, Kir, Huseyin, Kruse, Lauren, Lee, Changkyu, Lelieveldt, Boudewijn, Li, Yang, Liu, Hanqing, Markuhar, Anup, Mathews, James, Mathews, Kaylee, Miller, Michael, Mollenkopf, Tyler, Mufti, Shoaib, Mungall, Christopher, Ng, Lydia, Orvis, Joshua, Puchades, Maja, Qu, Lei, Receveur, Joseph, Ren, Bing, Sjoquist, Nathan, Staats, Brian, Thompson, Carol, Tward, Daniel, van Velthoven, Cindy, Wang, Quanxin, Xie, Fangming, Xu, Hua, Yao, Zizhen, Yun, Zhixi, Zeng, Hongkui, Zhang, Guo-Qiang, Zhang, Yun, Zheng, Jim, Zingg, Brian (2022) The BRAIN Initiative Cell Census Network Data Ecosystem: A User’s Guide. bioRxiv. (Submitted)

PDF 2022_BICCN_Data_Ecosystem_Collaboration_Preprint.pdf - Submitted Version Available under License Creative Commons Attribution. Download (9MB)

Abstract

Characterizing cellular diversity at different levels of biological organization across data modalities is a prerequisite to understanding the function of cell types in the brain. Classification of neurons is also required to manipulate cell types in controlled ways, and to understand their variation and vulnerability in brain disorders. The BRAIN Initiative Cell Census Network (BICCN) is an integrated network of data generating centers, data archives and data standards developers, with the goal of systematic multimodal brain cell type profiling and characterization. Emphasis of the BICCN is on the whole mouse brain and demonstration of prototypes for human and non-human primate (NHP) brains. Here, we provide a guide to the cellular and spatial approaches employed, and to accessing and using the BICCN data and its extensive resources, including the BRAIN Cell Data Center (BCDC) which serves to manage and integrate data across the ecosystem. We illustrate the power of the BICCN data ecosystem through vignettes highlighting several BICCN analysis and visualization tools. Finally, we present emerging standards that have been developed or adopted by the BICCN toward FAIR (Wilkinson et al. 2016a) neuroscience. The combined BICCN ecosystem provides a comprehensive resource for the exploration and analysis of cell types in the brain.

Item Type:	Paper
Subjects:	organs, tissues, organelles, cell types and functions > organs types and functions > brain neurobiology > neuroscience
CSHL Authors:	Gillis, Jesse Mitra, Partha P.
Communities:	CSHL labs > Gillis Lab CSHL labs > Mitra lab
SWORD Depositor:	CSHL Elements
Depositing User:	CSHL Elements
Date:	2022
Date Deposited:	02 Oct 2023 17:21
Last Modified:	27 Dec 2023 15:21
Related URLs:	Publisher
URI:	https://repository.cshl.edu/id/eprint/41092

Actions (login required)

Administrator's edit/view item