Literature DB >> 35549404

The Tabula Sapiens: A multiple-organ, single-cell transcriptomic atlas of humans.

Robert C Jones, Jim Karkanias, Mark A Krasnow, Angela Oliveira Pisco, Stephen R Quake, Julia Salzman, Nir Yosef, Bryan Bulthaup, Phillip Brown, William Harper, Marisa Hemenez, Ravikumar Ponnusamy, Ahmad Salehi, Bhavani A Sanagavarapu, Eileen Spallino, Ksenia A Aaron, Waldo Concepcion, James M Gardner, Burnett Kelly, Nikole Neidlinger, Zifa Wang, Sheela Crasta, Saroja Kolluru, Maurizio Morri, Angela Oliveira Pisco, Serena Y Tan, Kyle J Travaglini, Chenling Xu, Marcela Alcántara-Hernández, Nicole Almanzar, Jane Antony, Benjamin Beyersdorf, Deviana Burhan, Kruti Calcuttawala, Matthew M Carter, Charles K F Chan, Charles A Chang, Stephen Chang, Alex Colville, Sheela Crasta, Rebecca N Culver, Ivana Cvijović, Gaetano D'Amato, Camille Ezran, Francisco X Galdos, Astrid Gillich, William R Goodyer, Yan Hang, Alyssa Hayashi, Sahar Houshdaran, Xianxi Huang, Juan C Irwin, SoRi Jang, Julia Vallve Juanico, Aaron M Kershner, Soochi Kim, Bernhard Kiss, Saroja Kolluru, William Kong, Maya E Kumar, Angera H Kuo, Rebecca Leylek, Baoxiang Li, Gabriel B Loeb, Wan-Jin Lu, Sruthi Mantri, Maxim Markovic, Patrick L McAlpine, Antoine de Morree, Maurizio Morri, Karim Mrouj, Shravani Mukherjee, Tyler Muser, Patrick Neuhöfer, Thi D Nguyen, Kimberly Perez, Ragini Phansalkar, Angela Oliveira Pisco, Nazan Puluca, Zhen Qi, Poorvi Rao, Hayley Raquer-McKay, Nicholas Schaum, Bronwyn Scott, Bobak Seddighzadeh, Joe Segal, Sushmita Sen, Shaheen Sikandar, Sean P Spencer, Lea C Steffes, Varun R Subramaniam, Aditi Swarup, Michael Swift, Kyle J Travaglini, Will Van Treuren, Emily Trimm, Stefan Veizades, Sivakamasundari Vijayakumar, Kim Chi Vo, Sevahn K Vorperian, Wanxin Wang, Hannah N W Weinstein, Juliane Winkler, Timothy T H Wu, Jamie Xie, Andrea R Yung, Yue Zhang, Angela M Detweiler, Honey Mekonen, Norma F Neff, Rene V Sit, Michelle Tan, Jia Yan, Gregory R Bean, Vivek Charu, Erna Forgó, Brock A Martin, Michael G Ozawa, Oscar Silva, Serena Y Tan, Angus Toland, Venkata N P Vemuri, Shaked Afik, Kyle Awayan, Olga Borisovna Botvinnik, Ashley Byrne, Michelle Chen, Roozbeh Dehghannasiri, Angela M Detweiler, Adam Gayoso, Alejandro A Granados, Qiqing Li, Gita Mahmoudabadi, Aaron McGeever, Antoine de Morree, Julia Eve Olivieri, Madeline Park, Angela Oliveira Pisco, Neha Ravikumar, Julia Salzman, Geoff Stanley, Michael Swift, Michelle Tan, Weilun Tan, Alexander J Tarashansky, Rohan Vanheusden, Sevahn K Vorperian, Peter Wang, Sheng Wang, Galen Xing, Chenling Xu, Nir Yosef, Marcela Alcántara-Hernández, Jane Antony, Charles K F Chan, Charles A Chang, Alex Colville, Sheela Crasta, Rebecca Culver, Les Dethlefsen, Camille Ezran, Astrid Gillich, Yan Hang, Po-Yi Ho, Juan C Irwin, SoRi Jang, Aaron M Kershner, William Kong, Maya E Kumar, Angera H Kuo, Rebecca Leylek, Shixuan Liu, Gabriel B Loeb, Wan-Jin Lu, Jonathan S Maltzman, Ross J Metzger, Antoine de Morree, Patrick Neuhöfer, Kimberly Perez, Ragini Phansalkar, Zhen Qi, Poorvi Rao, Hayley Raquer-McKay, Koki Sasagawa, Bronwyn Scott, Rahul Sinha, Hanbing Song, Sean P Spencer, Aditi Swarup, Michael Swift, Kyle J Travaglini, Emily Trimm, Stefan Veizades, Sivakamasundari Vijayakumar, Bruce Wang, Wanxin Wang, Juliane Winkler, Jamie Xie, Andrea R Yung, Steven E Artandi, Philip A Beachy, Michael F Clarke, Linda C Giudice, Franklin W Huang, Kerwyn Casey Huang, Juliana Idoyaga, Seung K Kim, Mark Krasnow, Christin S Kuo, Patricia Nguyen, Stephen R Quake, Thomas A Rando, Kristy Red-Horse, Jeremy Reiter, David A Relman, Justin L Sonnenburg, Bruce Wang, Albert Wu, Sean M Wu, Tony Wyss-Coray.   

Abstract

Molecular characterization of cell types using single-cell transcriptome sequencing is revolutionizing cell biology and enabling new insights into the physiology of human organs. We created a human reference atlas comprising nearly 500,000 cells from 24 different tissues and organs, many from the same donor. This atlas enabled molecular characterization of more than 400 cell types, their distribution across tissues, and tissue-specific variation in gene expression. Using multiple tissues from a single donor enabled identification of the clonal distribution of T cells between tissues, identification of the tissue-specific mutation rate in B cells, and analysis of the cell cycle state and proliferative potential of shared cell types across tissues. Cell type-specific RNA splicing was discovered and analyzed across tissues within an individual.

Entities:  

Mesh:

Year:  2022        PMID: 35549404     DOI: 10.1126/science.abl4896

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   63.714


  20 in total

Review 1.  What is a cell type and how to define it?

Authors:  Hongkui Zeng
Journal:  Cell       Date:  2022-07-21       Impact factor: 66.850

Review 2.  Practical Considerations for Single-Cell Genomics.

Authors:  Claire Regan; Jonathan Preall
Journal:  Curr Protoc       Date:  2022-08

Review 3.  A Roadmap for the Human Oral and Craniofacial Cell Atlas.

Authors:  A J Caetano; I Sequeira; K M Byrd
Journal:  J Dent Res       Date:  2022-10       Impact factor: 8.924

4.  Single-cell RNA sequencing sheds light on cell-type specific gene expression in immune cells.

Authors:  Sarah Onuora
Journal:  Nat Rev Rheumatol       Date:  2022-07       Impact factor: 32.286

5.  A statistical, reference-free algorithm subsumes myriad problems in genome science and enables novel discovery.

Authors:  Kaitlin Chaung; Tavor Baharav; Ivan Zheludev; Julia Salzman
Journal:  bioRxiv       Date:  2022-06-27

6.  Applying transcriptomics to studyglycosylation at the cell type level.

Authors:  Leo Alexander Dworkin; Henrik Clausen; Hiren Jitendra Joshi
Journal:  iScience       Date:  2022-05-18

7.  Gut mucosa dissociation protocols influence cell type proportions and single-cell gene expression levels.

Authors:  Werna T C Uniken Venema; Aarón D Ramírez-Sánchez; Emilia Bigaeva; Sebo Withoff; Iris Jonkers; Rebecca E McIntyre; Mennatallah Ghouraba; Tim Raine; Rinse K Weersma; Lude Franke; Eleonora A M Festen; Monique G P van der Wijst
Journal:  Sci Rep       Date:  2022-06-14       Impact factor: 4.996

8.  Editorial: Single Cell Analysis - Discovery, Development and Implications to Study Cell-Cell and Cell-Pathogen Interactions.

Authors:  Weimin Gao; Deepa Rana Jamwal; Jiangxin Wang; Hua Xu
Journal:  Front Cell Dev Biol       Date:  2022-06-22

9.  Protective role of chaperone-mediated autophagy against atherosclerosis.

Authors:  Julio Madrigal-Matute; Jenny de Bruijn; Kim van Kuijk; Dario F Riascos-Bernal; Antonio Diaz; Inmaculada Tasset; Adrián Martín-Segura; Marion J J Gijbels; Bianca Sander; Susmita Kaushik; Erik A L Biessen; Simoni Tiano; Mathieu Bourdenx; Gregory J Krause; Ian McCracken; Andrew H Baker; Han Jin; Nicholas E S Sibinga; Jose Javier Bravo-Cordero; Fernando Macian; Rajat Singh; Patrick C N Rensen; Jimmy F P Berbée; Gerard Pasterkamp; Judith C Sluimer; Ana Maria Cuervo
Journal:  Proc Natl Acad Sci U S A       Date:  2022-04-01       Impact factor: 12.779

Review 10.  Fantastic AAV Gene Therapy Vectors and How to Find Them-Random Diversification, Rational Design and Machine Learning.

Authors:  Jonas Becker; Julia Fakhiri; Dirk Grimm
Journal:  Pathogens       Date:  2022-07-03
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