Single-cell transcriptional diversity is a hallmark of developmental potential-Reference-Cited by-同舟云学术

Single-cell transcriptional diversity is a hallmark of developmental potential

Published:2020-01-24 Issue:6476 Volume:367 Page:405-411
ISSN:0036-8075
Container-title:Science
language:en
Short-container-title:Science

Author:

Gulati Gunsagar S.¹^ORCID,Sikandar Shaheen S.¹^ORCID,Wesche Daniel J.¹^ORCID,Manjunath Anoop¹^ORCID,Bharadwaj Anjan¹^ORCID,Berger Mark J.²,Ilagan Francisco¹^ORCID,Kuo Angera H.¹^ORCID,Hsieh Robert W.¹,Cai Shang³^ORCID,Zabala Maider¹,Scheeren Ferenc A.⁴^ORCID,Lobo Neethan A.¹^ORCID,Qian Dalong¹^ORCID,Yu Feiqiao B.⁵^ORCID,Dirbas Frederick M.⁶^ORCID,Clarke Michael F.¹⁷^ORCID,Newman Aaron M.¹⁸^ORCID

Affiliation:

1. Institute for Stem Cell Biology and Regenerative Medicine, Stanford University, Stanford, CA 94305, USA.

2. Department of Computer Science, Stanford University, Stanford, CA 94305, USA.

3. School of Life Sciences, Westlake University, Zhejiang Province, China.

4. Department of Medical Oncology, Leiden University Medical Center, 2333 ZA Leiden, Netherlands.

5. Chan Zuckerberg Biohub, San Francisco, CA 94305, USA.

6. Department of Surgery, Stanford Cancer Institute, Stanford University, Stanford, CA 94305, USA.

7. Department of Medicine, Stanford University, Stanford, CA 94305, USA.

8. Department of Biomedical Data Science, Stanford University, Stanford, CA 94305, USA.

Abstract

More diversity at the top A detailed knowledge of cell differentiation hierarchies is important for understanding diverse biological processes such as organ development, tissue regeneration, and cancer. Single-cell RNA sequencing can help elucidate these hierarchies, but it requires reliable computational methods for predicting cell lineage trajectories. Gulati et al. developed CytoTRACE, a computational framework based on the simple observation that transcriptional diversity—the number of genes expressed in a cell—decreases during differentiation. CytoTRACE outperformed other methods in several test cases and was successfully applied to study cellular hierarchies in healthy and tumor tissue. Science , this issue p. 405

Funder

National Science Foundation

U.S. Department of Defense

National Cancer Institute

Stanford Bio-X Bowes Graduate Student Fellowship

Stanford Medical Science Training Program

Virginia and D.K. Ludwig Fund for Cancer Research

Stinehart-Reed foundation

Stanford Bio-X Interdisciplinary Initiatives Seed Grants Program

Breast Cancer Research Foundation

Publisher

American Association for the Advancement of Science (AAAS)