Literature DB >> 29096072

The BRAIN Initiative Cell Census Consortium: Lessons Learned toward Generating a Comprehensive Brain Cell Atlas.

Joseph R Ecker1, Daniel H Geschwind2, Arnold R Kriegstein3, John Ngai4, Pavel Osten5, Damon Polioudakis2, Aviv Regev6, Nenad Sestan7, Ian R Wickersham8, Hongkui Zeng9.   

Abstract

A comprehensive characterization of neuronal cell types, their distributions, and patterns of connectivity is critical for understanding the properties of neural circuits and how they generate behaviors. Here we review the experiences of the BRAIN Initiative Cell Census Consortium, ten pilot projects funded by the U.S. BRAIN Initiative, in developing, validating, and scaling up emerging genomic and anatomical mapping technologies for creating a complete inventory of neuronal cell types and their connections in multiple species and during development. These projects lay the foundation for a larger and longer-term effort to generate whole-brain cell atlases in species including mice and humans.
Copyright © 2017 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  BRAIN initiative; anatomy; cell census; connectivity; electrophysiology; human brain; mouse brain; single-cell RNA-seq; single-cell epigenomics; single-cell transcriptomics

Mesh：

Year:  2017        PMID： 29096072      PMCID： PMC5689454          DOI： 10.1016/j.neuron.2017.10.007

Source DB:  PubMed          Journal:  Neuron        ISSN： 0896-6273            Impact factor:   17.173


  176 in total

1.  Organizing principles for a diversity of GABAergic interneurons and synapses in the neocortex.

Authors:  A Gupta; Y Wang; H Markram
Journal:  Science       Date:  2000-01-14       Impact factor: 47.728

2.  Optical sectioning deep inside live embryos by selective plane illumination microscopy.

Authors:  Jan Huisken; Jim Swoger; Filippo Del Bene; Joachim Wittbrodt; Ernst H K Stelzer
Journal:  Science       Date:  2004-08-13       Impact factor: 47.728

3.  Molecular taxonomy of major neuronal classes in the adult mouse forebrain.

Authors:  Ken Sugino; Chris M Hempel; Mark N Miller; Alexis M Hattox; Peter Shapiro; Caizi Wu; Z Josh Huang; Sacha B Nelson
Journal:  Nat Neurosci       Date:  2005-12-20       Impact factor: 24.884

4.  Zfp312 is required for subcortical axonal projections and dendritic morphology of deep-layer pyramidal neurons of the cerebral cortex.

Authors:  Jie-Guang Chen; Mladen-Roko Rasin; Kenneth Y Kwan; Nenad Sestan
Journal:  Proc Natl Acad Sci U S A       Date:  2005-11-28       Impact factor: 11.205

5.  Genome-wide atlas of gene expression in the adult mouse brain.

Authors:  Ed S Lein; Michael J Hawrylycz; Nancy Ao; Mikael Ayres; Amy Bensinger; Amy Bernard; Andrew F Boe; Mark S Boguski; Kevin S Brockway; Emi J Byrnes; Lin Chen; Li Chen; Tsuey-Ming Chen; Mei Chi Chin; Jimmy Chong; Brian E Crook; Aneta Czaplinska; Chinh N Dang; Suvro Datta; Nick R Dee; Aimee L Desaki; Tsega Desta; Ellen Diep; Tim A Dolbeare; Matthew J Donelan; Hong-Wei Dong; Jennifer G Dougherty; Ben J Duncan; Amanda J Ebbert; Gregor Eichele; Lili K Estin; Casey Faber; Benjamin A Facer; Rick Fields; Shanna R Fischer; Tim P Fliss; Cliff Frensley; Sabrina N Gates; Katie J Glattfelder; Kevin R Halverson; Matthew R Hart; John G Hohmann; Maureen P Howell; Darren P Jeung; Rebecca A Johnson; Patrick T Karr; Reena Kawal; Jolene M Kidney; Rachel H Knapik; Chihchau L Kuan; James H Lake; Annabel R Laramee; Kirk D Larsen; Christopher Lau; Tracy A Lemon; Agnes J Liang; Ying Liu; Lon T Luong; Jesse Michaels; Judith J Morgan; Rebecca J Morgan; Marty T Mortrud; Nerick F Mosqueda; Lydia L Ng; Randy Ng; Geralyn J Orta; Caroline C Overly; Tu H Pak; Sheana E Parry; Sayan D Pathak; Owen C Pearson; Ralph B Puchalski; Zackery L Riley; Hannah R Rockett; Stephen A Rowland; Joshua J Royall; Marcos J Ruiz; Nadia R Sarno; Katherine Schaffnit; Nadiya V Shapovalova; Taz Sivisay; Clifford R Slaughterbeck; Simon C Smith; Kimberly A Smith; Bryan I Smith; Andy J Sodt; Nick N Stewart; Kenda-Ruth Stumpf; Susan M Sunkin; Madhavi Sutram; Angelene Tam; Carey D Teemer; Christina Thaller; Carol L Thompson; Lee R Varnam; Axel Visel; Ray M Whitlock; Paul E Wohnoutka; Crissa K Wolkey; Victoria Y Wong; Matthew Wood; Murat B Yaylaoglu; Rob C Young; Brian L Youngstrom; Xu Feng Yuan; Bin Zhang; Theresa A Zwingman; Allan R Jones
Journal:  Nature       Date:  2006-12-06       Impact factor: 49.962

6.  Rabies virus glycoprotein pseudotyping of lentiviral vectors enables retrograde axonal transport and access to the nervous system after peripheral delivery.

Authors:  N D Mazarakis; M Azzouz; J B Rohll; F M Ellard; F J Wilkes; A L Olsen; E E Carter; R D Barber; D F Baban; S M Kingsman; A J Kingsman; K O'Malley; K A Mitrophanous
Journal:  Hum Mol Genet       Date:  2001-09-15       Impact factor: 6.150

7.  Neuronal subtype-specific genes that control corticospinal motor neuron development in vivo.

Authors:  Paola Arlotta; Bradley J Molyneaux; Jinhui Chen; Jun Inoue; Ryo Kominami; Jeffrey D Macklis
Journal:  Neuron       Date:  2005-01-20       Impact factor: 17.173

8.  Long-term in vivo transduction of neurons throughout the rat CNS using novel helper-dependent CAV-2 vectors.

Authors:  Claire Soudais; Nadia Skander; Eric J Kremer
Journal:  FASEB J       Date:  2003-12-19       Impact factor: 5.191

9.  A gene expression atlas of the central nervous system based on bacterial artificial chromosomes.

Authors:  Shiaoching Gong; Chen Zheng; Martin L Doughty; Kasia Losos; Nicholas Didkovsky; Uta B Schambra; Norma J Nowak; Alexandra Joyner; Gabrielle Leblanc; Mary E Hatten; Nathaniel Heintz
Journal:  Nature       Date:  2003-10-30       Impact factor: 49.962

10.  VISTA Enhancer Browser--a database of tissue-specific human enhancers.

Authors:  Axel Visel; Simon Minovitsky; Inna Dubchak; Len A Pennacchio
Journal:  Nucleic Acids Res       Date:  2006-11-27       Impact factor: 16.971
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  86 in total

Review 1.  Perspectives on defining cell types in the brain.

Authors:  Eran A Mukamel; John Ngai
Journal:  Curr Opin Neurobiol       Date:  2018-12-06       Impact factor: 6.627

2.  Brain-Wide Shape Reconstruction of a Traced Neuron Using the Convex Image Segmentation Method.

Authors:  Shiwei Li; Tingwei Quan; Hang Zhou; Qing Huang; Tao Guan; Yijun Chen; Cheng Xu; Hongtao Kang; Anan Li; Ling Fu; Qingming Luo; Hui Gong; Shaoqun Zeng
Journal:  Neuroinformatics       Date:  2020-04

3.  Imaging and Manipulating Pituitary Function in the Awake Mouse.

Authors:  Ombeline Hoa; Chrystel Lafont; Pierre Fontanaud; Anne Guillou; Yasmine Kemkem; Rhonda D Kineman; Raul M Luque; Tatiana Fiordelisio Coll; Paul Le Tissier; Patrice Mollard
Journal:  Endocrinology       Date:  2019-10-01       Impact factor: 4.736

Review 4.  Neuronal differentiation strategies: insights from single-cell sequencing and machine learning.

Authors:  Nikolaos Konstantinides; Claude Desplan
Journal:  Development       Date:  2020-12-08       Impact factor: 6.868

5.  Single-cell sequencing paints diverse pictures of the brain.

Authors:  Aparna Bhaduri; Tomasz J Nowakowski
Journal:  Nature       Date:  2018-11       Impact factor: 49.962

6.  The State of the NIH BRAIN Initiative.

Authors:  Walter Koroshetz; Joshua Gordon; Amy Adams; Andrea Beckel-Mitchener; James Churchill; Gregory Farber; Michelle Freund; Jim Gnadt; Nina S Hsu; Nicholas Langhals; Sarah Lisanby; Guoying Liu; Grace C Y Peng; Khara Ramos; Michael Steinmetz; Edmund Talley; Samantha White
Journal:  J Neurosci       Date:  2018-06-19       Impact factor: 6.167

Review 7.  Single cell RNA-sequencing: replicability of cell types.

Authors:  Megan Crow; Jesse Gillis
Journal:  Curr Opin Neurobiol       Date:  2019-01-09       Impact factor: 6.627

Review 8.  Signatures of sex: Sex differences in gene expression in the vertebrate brain.

Authors:  Bruno Gegenhuber; Jessica Tollkuhn
Journal:  Wiley Interdiscip Rev Dev Biol       Date:  2019-05-20       Impact factor: 5.814

Review 9.  Neuronal vulnerability in Parkinson disease: Should the focus be on axons and synaptic terminals?

Authors:  Yvette C Wong; Kelvin Luk; Kerry Purtell; Samuel Burke Nanni; A Jon Stoessl; Louis-Eric Trudeau; Zhenyu Yue; Dimitri Krainc; Wolfgang Oertel; Jose A Obeso; Laura A Volpicelli-Daley
Journal:  Mov Disord       Date:  2019-09-04       Impact factor: 10.338

Review 10.  Mesoscale connectomics.

Authors:  Hongkui Zeng
Journal:  Curr Opin Neurobiol       Date:  2018-03-24       Impact factor: 6.627
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