Posted Content10.17504/protocols.io.dm6gpwd8jlzp/v2
10Xv3.1 Genomics Sample Processing v2
dr kemi22
- 11 May 2022
2
TL;DR: In this paper , a protocol is used for the rapid generation of 3' transcriptomic-NGS-ready-single-cell-libraries from pools of cells, which can be used for a variety of applications.
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Abstract: This protocol is used for the rapid generation of 3’ transcriptomic-NGS-ready- single-cell-libraries from pools of cells. Note: Research reported in this publication was supported by the National Institute Of Mental Health of the National Institutes of Health under Award Number's 1U01MH114812-01 and 1U19MH114830-01. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.
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A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain
Zizhen Yao,Cindy T. J. van Velthoven,Michael Kunst,Meng Zhang,Delissa A. McMillen,Changkyu Lee,Won Jung,Jeff Goldy,Aliya Abdelhak,Matthew Aitken,Katherine Baker,Pamela Baker,Eliza Barkan,Darren Bertagnolli,Ashwin Bhandiwad,Cameron Bielstein,Prajal Bishwakarma,Jazmin Campos,Daniel Carey,Tamara Casper,Anish Chakka,Rushil Chakrabarty,Sakshi Chavan,Min Chen,Michael Clark,Jennie Close,Kirsten Crichton,Scott Daniel,Peter DiValentin,Tim A. Dolbeare,Lauren Ellingwood,Elysha Fiabane,Tim P. Fliss,James Gee,James Gerstenberger,Alexandra Glandon,Jessica Gloe,Joshua Gould,James Gray,Nathaniel Guilford,Junitta Guzman,Daniel Hirschstein,Windy Ho,Marcus Hooper,Mike Huang,Madison T Hupp,Kelly Jin,Matthew R Kroll,Kanan Lathia,Arielle Leon,Su Li,Brian Long,Zach Madigan,Jessica Malloy,Jocelin Malone,Zoe Maltzer,Naomi Martin,Rachel A. McCue,Ryan McGinty,Nicholas Mei,J. Melchor,Emma Meyerdierks,Tyler Mollenkopf,Skyler Moonsman,Thuc Nghi Nguyen,Sven Otto,Trangthanh Pham,Christine Rimorin,Augustin Ruiz,Raymond Sanchez,Lane Sawyer,Nadiya V. Shapovalova,Noah Shepard,Clifford R. Slaughterbeck,Josef Sulc,Michael Tieu,Amy Torkelson,Herman Tung,Nasmil J. Valera Cuevas,Shane Vance,Katherine Wadhwani,Katelyn R. Ward,Boaz P. Levi,Colin Farrell,Rob Young,Brian Staats,Ming‐Qiang (Michael) Wang,Carol L. Thompson,Shoaib Mufti,Chelsea M. Pagan,Lauren Kruse,Nick Dee,Susan M. Sunkin,Luke A. Esposito,Michael Hawrylycz,Jack Waters,Lydia Ng,Kimberly A. Smith,Bosiljka Tasic,Xiaowei Zhuang,Hongkui Zeng +100 more
TL;DR: A comprehensive and high-resolution transcriptomic and spatial cell-type atlas for the whole adult mouse brain establishes a benchmark reference atlas and a foundational resource for integrative investigations of cellular and circuit function, development and evolution of the mammalian brain.
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A high-resolution transcriptomic and spatial atlas of cell types in the whole mouse brain
Zizhen Yao,Cindy T. J. van Velthoven,Michael Kunst,Meng Zhang,Delissa McMillen,Changkyu Lee,Won Jung,Jeff Goldy,Aliya Abdelhak,Pamela Baker,Eliza Barkan,Darren Bertagnolli,Jazmin Campos,Daniel Carey,Tamara Casper,Anish Chakka,Rushil Chakrabarty,Sakshi Chavan,Min Chen,Michael Clark,Jennie Close,Kirsten Crichton,Scott Daniel,Tim A. Dolbeare,Lauren Ellingwood,James Gee,Alexandra Glandon,Jessica Gloe,Joshua Gould,James Gray,Nathaniel Guilford,Junitta Guzman,Daniel Hirschstein,Windy Ho,Kelly Jin,Matthew R Kroll,Kanan Lathia,Arielle Leon,Brian Long,Zoe Maltzer,Naomi Martin,Rachel McCue,Emma Meyerdierks,Thuc Nghi Nguyen,Trangthanh Pham,Christine Rimorin,Augustin Ruiz,Nadiya V. Shapovalova,Clifford R. Slaughterbeck,Josef Sulc,Michael Tieu,Amy Torkelson,Herman Tung,Nasmil Valera Cuevas,Katherine Wadhwani,Katelyn R. Ward,Boaz P. Levi,Colin Farrell,Carol L. Thompson,Shoaib Mufti,Chelsea M. Pagan,Lauren Kruse,Nick Dee,Susan M. Sunkin,Luke A. Esposito,Michael Hawrylycz,Jack Waters,Lydia Ng,Kimberly A. Smith,Bosiljka Tasic,Xiaowei Zhuang,Hongkui Zeng +71 more
TL;DR: The cell type atlas for the whole adult mouse brain was created based on the combination of two singlecell-level, whole-brain-scale datasets: a single-cell RNA-sequencing (scRNA-seq) dataset of ∼7 million cells profiled, and a spatially resolved transcriptomic dataset with ∼4.3 million cells using MERFISH as discussed by the authors .