Journal ArticleDOI
What is a cell type and how to define it?
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TLDR
An overview of the basic principles of cell types rooted in evolution and development and approaches to characterize and classify cell types and investigate how they contribute to the organism's function, using the mammalian brain as a primary example as mentioned in this paper .About:
This article is published in Cell.The article was published on 2022-07-01. It has received 73 citations till now. The article focuses on the topics: Medicine & Biology.read more
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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 A. 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 .
Journal ArticleDOI
Molecular and anatomical characterization of parabrachial neurons and their axonal projections
TL;DR: In this paper , a repository of data on the molecular identity, spatial location, and projection patterns of dozens of parabrachial nucleus neuron subclusters is provided. But it is unclear how many PBN neuron populations exist and how different behaviors may be encoded by unique signaling molecules or receptors.
Journal ArticleDOI
Insights into Alzheimer’s disease from single-cell genomic approaches
Mitchell H. Murdock,Li-Huei Tsai +1 more
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The cell type composition of the adult mouse brain revealed by single cell and spatial genomics
Jonah Langlieb,Nina Sachdev,Karol S. Balderrama,Naeem Nadaf,Mukund Raj,Evan Murray,James Weber,Charles R. Vanderburg,Vahid H. Gazestani,Daniel Tward,Chris Mezias,Xu Li,Dylan M. Cable,Tabitha Norton,Partha P. Mitra,Fei Chen,Evan Z. Macosko +16 more
TL;DR: In this article , the authors constructed a comprehensive atlas of cell types in each brain structure, paired high-throughput single-nucleus RNA-seq with Slide-seq-a recently developed spatial transcriptomics method with near-cellular resolution.
Posted ContentDOI
Cell-type-specific inhibitory circuitry from a connectomic census of mouse visual cortex
Casey M Schneider-Mizell,Ágnes L. Bodor,Derrick Brittain,JoAnn Buchanan,Daniel J. Bumbarger,Leila Elabbady,D.J. Kapner,Sam Kinn,Gayathri Mahalingam,Sharmishtaa Seshamani,Shelby K. Suckow,Marc Takeno,Russel Torres,Wenjing Yin,Sven Dorkenwald,J. Alexander Bae,Manuel Castro,Paul G. Fahey,Emmanouil Froudakis,Akhilesh Halageri,Zhen Jia,Chris S. Jordan,Nico Kemnitz,Kisuk Lee,Kai Li,Ran Lu,Thomas Macrina,Eric Mitchell,Shanka Subhra Mondal,Shang Mu,Barak Nehoran,Stelios Papadopoulos,Saumil S. Patel,Xaq Pitkow,Sergiy Popovych,William Silversmith,Nicholas L. Turner,William Wong,Jingpeng Wu,Szi-chieh Yu,Jake Reimer,Andreas S. Tolias,H. Sebastian Seung,R. Clay Reid,Forrest Collman,Nuno Maçarico da Costa +45 more
TL;DR: In this article , the authors used millimeter-scale volumetric electron microscopy to investigate the connectivity of inhibitory neurons across a dense neuronal population spanning all layers of mouse visual cortex with synaptic resolution.
References
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Journal ArticleDOI
Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets
Evan Z. Macosko,Evan Z. Macosko,Anindita Basu,Anindita Basu,Rahul Satija,Rahul Satija,James Nemesh,James Nemesh,Karthik Shekhar,Melissa Goldman,Melissa Goldman,Itay Tirosh,Allison R. Bialas,Nolan Kamitaki,Nolan Kamitaki,Emily M. Martersteck,John J. Trombetta,David A. Weitz,Joshua R. Sanes,Alex K. Shalek,Alex K. Shalek,Alex K. Shalek,Aviv Regev,Aviv Regev,Aviv Regev,Steven A. McCarroll,Steven A. McCarroll +26 more
TL;DR: Drop-seq will accelerate biological discovery by enabling routine transcriptional profiling at single-cell resolution by separating them into nanoliter-sized aqueous droplets, associating a different barcode with each cell's RNAs, and sequencing them all together.
Journal ArticleDOI
The structure of the nervous system of the nematode Caenorhabditis elegans
TL;DR: The structure and connectivity of the nervous system of the nematode Caenorhabditis elegans has been deduced from reconstructions of electron micrographs of serial sections as discussed by the authors.
Journal ArticleDOI
The embryonic cell lineage of the nematode Caenorhabditis elegans.
TL;DR: It is concluded that the cell lineage itself, complex as it is, plays an important role in determining cell fate and is demonstrated to demonstrate substantial cell autonomy in at least some sections of embryogenesis.
Journal ArticleDOI
Interneurons of the neocortical inhibitory system.
TL;DR: This review focuses on the organizing principles that govern the diversity of inhibitory interneurons and their circuits.
Journal ArticleDOI
Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq
Amit Zeisel,Ana B. Muñoz-Manchado,Simone Codeluppi,Peter Lönnerberg,Gioele La Manno,Anna Juréus,Sueli Marques,Hermany Munguba,Liqun He,Christer Betsholtz,Christer Betsholtz,Charlotte Rolny,Gonçalo Castelo-Branco,Jens Hjerling-Leffler,Sten Linnarsson +14 more
TL;DR: Large-scale single-cell RNA sequencing is used to classify cells in the mouse somatosensory cortex and hippocampal CA1 region and found 47 molecularly distinct subclasses, comprising all known major cell types in the cortex.