Evidence map›Paper›PMID 33664261›Full record

ArticleNature communications2021

Transcriptome and chromatin landscape of iNKT cells are shaped by subset differentiation and antigen exposure.

Mallory Paynich Murray, Isaac Engel, Grégory Seumois, Sara Herrera-De la Mata, Sandy Lucette Rosales, Ashu Sethi, Ashmitaa Logandha Ramamoorthy Premlal, Goo-Young Seo, Jason Greenbaum, Pandurangan Vijayanand and 2 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.

0numbers the graph read from it
0cells of the map it votes in
25citing papers in PubMed
2.2field-weighted citation impact, top 12% of its field
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

25 citing papers in PubMed, 39 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Metabolic control of innate-like T cells.Nature reviews. Immunology · 2026
    Review
  5. Review
  6. Article
  7. The Immune Microenvironment: New Therapeutic Implications in Organ Fibrosis.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025
    Review
  8. Review
  9. Innateness transcriptome gradients characterize mouse T lymphocyte populations.Journal of immunology (Baltimore, Md. : 1950) · 2025
    Article
  10. Article
  11. IL-27 regulates the differentiation of follicular helper NKT cells via metabolic adaptation of mitochondria.Proceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  12. Review
  13. Review
  14. Article
  15. Article
  16. Article
  17. Article
  18. Invariant natural killer T cells in lung diseases.Experimental & molecular medicine · 2023
    Review
  19. Article
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

12 authors at 1 institution in 2 countries.

Mallory Paynich Murray *La Jolla Institute for Immunology, La Jolla, CA, USA.ORCID 0000-0001-7759-2858
Isaac Engel *La Jolla Institute for Immunology, La Jolla, CA, USA.
Grégory Seumois *La Jolla Institute for Immunology, La Jolla, CA, USA.ORCID 0000-0002-8164-6852
Sara Herrera-De la MataLa Jolla Institute for Immunology, La Jolla, CA, USA.ORCID 0000-0002-9519-9520
Sandy Lucette RosalesLa Jolla Institute for Immunology, La Jolla, CA, USA.
Ashu SethiLa Jolla Institute for Immunology, La Jolla, CA, USA.
Ashmitaa Logandha Ramamoorthy PremlalLa Jolla Institute for Immunology, La Jolla, CA, USA.
Goo-Young SeoLa Jolla Institute for Immunology, La Jolla, CA, USA.
Jason GreenbaumLa Jolla Institute for Immunology, La Jolla, CA, USA.
Pandurangan VijayanandLa Jolla Institute for Immunology, La Jolla, CA, USA.ORCID 0000-0001-7067-9723
James P Scott-BrowneLa Jolla Institute for Immunology, La Jolla, CA, USA. SCOTTBROWNEJ@njhealth.org.
Mitchell KronenbergLa Jolla Institute for Immunology, La Jolla, CA, USA. mitch@lji.org.ORCID 0000-0001-6318-6445
La Jolla Institute for Immunology · US

Funding

SIGNAL TRANSDUCTION AND GENE INDUCTION IN T LYMPHOCYTESR01AI040127 · NIAID · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI HOGAN, PATRICK, RAO, ANJANA · 1996 to 2025
$13.3M
NFAT, bZIP proteins, and transcriptional programs in lymphocytesR01AI109842 · NIAID · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI Patrick Hogan, Anjana Rao · 2014 to 2026
$8.6M
Host nutrients permit immune evasion of NKT cell anti-bacterial responsesR01AI137230 · NIAID · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI KRONENBERG, MITCHELL · 2018 to 2022
$3.1M
Training in Immunological MechanismsT32AI125179 · NIAID · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI CROFT, MICHAEL · 2016 to 2025
$3.1M
Differentiation of subsets of NKT cellsR01AI071922 · NIAID · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI KRONENBERG, MITCHELL · 2016 to 2020
$2.7M
The role of natural killer T cells in the innate response to lung infectionR01AI105215 · NIAID · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI KRONENBERG, MITCHELL · 2014 to 2018
$2.2M
NovaSeq5000 High Throughput SequencerS10OD025052 · OD · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI SEUMOIS, GREGORY · 2018 to 2018
$832k
CyTOF Mass CytometerS10OD018499 · OD · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI CROTTY, SHANE P · 2014 to 2014
$802k
Illumina HiSeq 2500 Sequencing SystemS10OD016262 · OD · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI RAO, ANJANA · 2013 to 2013
$600k
FACSAria II Cell SorterS10RR027366 · NCRR · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI CROFT, MICHAEL · 2011 to 2011
$514k
NFAT, bZIP proteins, and transcriptional programs in lymphocytesR56AI109842 · NIAID · LA JOLLA INSTITUTE FOR IMMUNOLOGY · PI HOGAN, PATRICK, RAO, ANJANA · 2019 to 2019
$414k
NCRR NIH HHS S10 RR027366NIAID NIH HHS R01 AI040127NIAID NIH HHS R01 AI071922NIAID NIH HHS R01 AI105215NIAID NIH HHS R01 AI109842NIAID NIH HHS R01 AI137230NIAID NIH HHS R56 AI109842NIAID NIH HHS T32 AI125179NIH HHS S10 OD016262NIH HHS S10 OD018499NIH HHS S10 OD025052
6 · The paper itself

Abstract

Invariant natural killer T cells (iNKT cells) differentiate into thymic and peripheral NKT1, NKT2 and NKT17 subsets. Here we use RNA-seq and ATAC-seq analyses and show iNKT subsets are similar, regardless of tissue location. Lung iNKT cell subsets possess the most distinct location-specific features, shared with other innate lymphocytes in the lung, possibly consistent with increased activation. Following antigenic stimulation, iNKT cells undergo chromatin and transcriptional changes delineating two populations: one similar to follicular helper T cells and the other NK or effector like. Phenotypic analysis indicates these changes are observed long-term, suggesting that iNKT cells gene programs are not fixed, but they are capable of chromatin remodeling after antigen to give rise to additional subsets.

Indexed as

AnimalsCell DifferentiationChromatinFemaleLungLymphocyte ActivationMiceMice, Inbred C57BLMice, TransgenicNatural Killer T-CellsT Follicular Helper CellsThymus GlandT-Lymphocyte SubsetsTranscriptomeChromatin

Identifiers

PMID33664261
PMCPMC7933435
OpenAlexW3134236582

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.