Evidence map›Paper›PMID 26607794›Full record

ArticleCell2015

Single-Cell Genomics Unveils Critical Regulators of Th17 Cell Pathogenicity.

Jellert T Gaublomme, Nir Yosef, Youjin Lee, Rona S Gertner, Li V Yang, Chuan Wu, Pier Paolo Pandolfi, Tak Mak, Rahul Satija, Alex K Shalek and 3 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 355 papers.

0numbers the graph read from it
0cells of the map it votes in
355citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

355 citing papers in PubMed.

  1. Trial
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  3. Article
  4. SiteCELL enablesiScience · 2026
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  5. Contextualizing TNature reviews. Immunology · 2026
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  10. Pro-Inflammatory c-MetAnnals of neurology · 2026
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  13. Review
  14. Article
  15. Article
  16. Article
  17. Review
  18. Article
  19. Article
  20. Article

295 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

13 authors.

Jellert T GaublommeBroad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA 02142, USA; Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, MA 02138, USA; Department of Physics, Harvard University, 17 Oxford Street, Cambridge, MA 02138, USA.
Nir YosefBroad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA 02142, USA; Department of Electrical Engineering and Computer Science and Center for Computational Biology, University of California, Berkeley, Berkeley, CA 94720, USA.
Youjin LeeBroad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA 02142, USA; Evergrande Center for Immunologic Diseases, Harvard Medical School and Brigham and Women's Hospital, Harvard Institutes of Medicine, 77 Avenue Louis Pasteur, Boston, MA 02115, USA.
Rona S GertnerDepartment of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, MA 02138, USA; Department of Physics, Harvard University, 17 Oxford Street, Cambridge, MA 02138, USA.
Li V YangDepartment of Internal Medicine, Department of Anatomy and Cell Biology, Brody School of Medicine, East Carolina University, Greenville, NC 27834, USA.
Chuan WuEvergrande Center for Immunologic Diseases, Harvard Medical School and Brigham and Women's Hospital, Harvard Institutes of Medicine, 77 Avenue Louis Pasteur, Boston, MA 02115, USA.
Pier Paolo PandolfiCancer Research Institute, Beth Israel Deaconess Cancer Center, Department of Medicine and Pathology, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02215, USA.
Tak MakOntario Cancer Center, Princess Margaret Hospital, Toronto, ON M5G 2M9, Canada.
Rahul SatijaBroad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA 02142, USA; New York Genome Center, New York, NY 10013, USA; Center for Genomics and Systems Biology, New York University, New York, NY 10012, USA.
Alex K ShalekBroad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA 02142, USA; Institute for Medical Engineering and Science and Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA 02142, USA; Ragon Institute of Massachusetts General Hospital, Massachusetts Institute of Technology and Harvard University, Boston, MA 02139, USA.
Vijay K KuchrooBroad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA 02142, USA; Evergrande Center for Immunologic Diseases, Harvard Medical School and Brigham and Women's Hospital, Harvard Institutes of Medicine, 77 Avenue Louis Pasteur, Boston, MA 02115, USA.
Hongkun ParkBroad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA 02142, USA; Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, MA 02138, USA; Department of Physics, Harvard University, 17 Oxford Street, Cambridge, MA 02138, USA. Electronic address: hongkun_park@harvard.edu.
Aviv RegevBroad Institute of MIT and Harvard, 415 Main Street, Cambridge, MA 02142, USA; Howard Hughes Medical Institute and David H. Koch Institute of Integrative Cancer Biology, Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02142, USA. Electronic address: aregev@broadinstitute.org.

Funding

VIRUS PRODUCTION COREP30CA014051 · NCI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI Kristin A Knouse · 1985 to 2026
$93.9M
Role of Negative Costimulation in Regulation of AutoimmunityP01AI039671 · NIAID · YALE UNIVERSITY · PI David A. Hafler · 1996 to 2026
$51.7M
Transgenic/KnockoutP01AI056299 · NIAID · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI BLAZAR, BRUCE R · 2003 to 2023
$42.5M
Center for Cell CircuitsP50HG006193 · NHGRI · BROAD INSTITUTE, INC. · PI REGEV, AVIV · 2011 to 2015
$15.6M
Transcriptional regulations of effector and regulatory T cells in EAEP01NS076410 · NINDS · BRIGHAM AND WOMEN'S HOSPITAL · PI KUCHROO, VIJAY K. · 2013 to 2017
$5.6M
T CELL RESPONSE TO MYELIN PROTEOLIPID PROTEINR01NS030843 · NINDS · BRIGHAM AND WOMEN'S HOSPITAL · PI KUCHROO, VIJAY K. · 1998 to 2019
$4.1M
T cell response to myelin proteolipid proteinR37NS030843 · NINDS · BRIGHAM AND WOMEN'S HOSPITAL · PI KUCHROO, VIJAY K. · 2002 to 2008
$2.6M
Molecular signatures of high salt induced pathogenic T cellsR00AI110649 · NIAID · BRIGHAM AND WOMEN'S HOSPITAL · PI WU, CHUAN · 2015 to 2016
$498k
The chromatin regulatory circuitry of bivalent domainsF32HD075541 · NICHD · BROAD INSTITUTE, INC. · PI SATIJA, RAHUL · 2013 to 2014
$99k
TCELL RESPONSE TO MYELIN PROTEOLIPID PROTEINR29NS030843 · NINDS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI KUCHROO, VIJAY K · 1992 to 1996
–
NCI NIH HHS P30 CA014051NCI NIH HHS P30-CA14051NHGRI NIH HHS P50 HG006193NIAID NIH HHS 4R00AI110649NIAID NIH HHS AI039671NIAID NIH HHS AI056299NIAID NIH HHS P01 AI039671NIAID NIH HHS P01 AI056299NIAID NIH HHS R00 AI110649NICHD NIH HHS F32 HD075541NINDS NIH HHS NS030843NINDS NIH HHS NS076410NINDS NIH HHS P01 NS076410NINDS NIH HHS R01 NS030843NINDS NIH HHS R29 NS030843NINDS NIH HHS R37 NS030843
6 · The paper itself

Abstract

Extensive cellular heterogeneity exists within specific immune-cell subtypes classified as a single lineage, but its molecular underpinnings are rarely characterized at a genomic scale. Here, we use single-cell RNA-seq to investigate the molecular mechanisms governing heterogeneity and pathogenicity of Th17 cells isolated from the central nervous system (CNS) and lymph nodes (LN) at the peak of autoimmune encephalomyelitis (EAE) or differentiated in vitro under either pathogenic or non-pathogenic polarization conditions. Computational analysis relates a spectrum of cellular states in vivo to in-vitro-differentiated Th17 cells and unveils genes governing pathogenicity and disease susceptibility. Using knockout mice, we validate four new genes: Gpr65, Plzp, Toso, and Cd5l (in a companion paper). Cellular heterogeneity thus informs Th17 function in autoimmunity and can identify targets for selective suppression of pathogenic Th17 cells while potentially sparing non-pathogenic tissue-protective ones.

Indexed as

Sequence Analysis, RNASingle-Cell AnalysisAnimalsApoptosis Regulatory ProteinsCarrier ProteinsCentral Nervous SystemEncephalomyelitis, Autoimmune, ExperimentalGene Expression ProfilingHumansKruppel-Like Transcription FactorsLymph NodesMembrane ProteinsMiceMice, Inbred C57BLMice, KnockoutMyelin-Oligodendrocyte GlycoproteinApoptosis Regulatory ProteinsCarrier ProteinsCd5l protein, mouseFcmr protein, mouseGPR65 protein, mouseKruppel-Like Transcription FactorsMembrane ProteinsMyelin-Oligodendrocyte Glycoproteinmyelin oligodendrocyte glycoprotein (35-55)Peptide FragmentsPromyelocytic Leukemia Zinc Finger ProteinReceptors, G-Protein-CoupledReceptors, ImmunologicReceptors, ScavengerZbtb16 protein, mouse

Identifiers

PMID26607794
PMCPMC4671824

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.