Evidence map›Paper›PMID 22768209›Full record

ArticlePloS one2012

CD28 costimulation regulates genome-wide effects on alternative splicing.

Manish J Butte, Sun Jung Lee, Jonathan Jesneck, Mary E Keir, W Nicholas Haining, Arlene H Sharpe

Open access · goldAbstract read
In one paragraph

Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.

0numbers the graph read from it
0cells of the map it votes in
24citing papers in PubMed
0.9field-weighted citation impact, top 27% 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

24 citing papers in PubMed, 50 citations in OpenAlex.

  1. Review
  2. Regulation of CD45 isoforms during human effector and memory CD8 T cell differentiation: Implications for T cell nomenclature.Proceedings of the National Academy of Sciences of the United States of America · 2025
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  10. Review
  11. Optimal CD8Nature communications · 2022
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  13. Article
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  15. Review
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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

6 authors at 3 institutions in 1 country.

Manish J ButteDepartment of Microbiology and Immunobiology, Harvard Medical School, Boston, Massachusetts, United States of America.
Sun Jung Lee
Jonathan Jesneck
Mary E Keir
W Nicholas Haining
Arlene H Sharpe
Harvard University · USDana-Farber Cancer Institute · USBrigham and Women's Hospital · US

Funding

Role of Negative Costimulation in Regulation of AutoimmunityP01AI039671 · NIAID · YALE UNIVERSITY · PI David A. Hafler · 1996 to 2026
$51.7M
The Slamf3, Slamf5, and Slamf6 receptor-induced pathways to murine lupusP01AI065687 · NIAID · BETH ISRAEL DEACONESS MEDICAL CENTER · PI TERHORST, CORNELIS P · 2006 to 2016
$14.7M
Functional genomic analysis of the CD8 T cell response to HIV vaccines inR01AI091493 · NIAID · DANA-FARBER CANCER INST · PI AHMED, RAFI, HAINING, WILLIAM NICHOLAS · 2010 to 2015
$4.9M
Mechanisms of T cell inhibitory pathwaysK08AI079268 · NIAID · STANFORD UNIVERSITY · PI BUTTE, MANISH J · 2009 to 2012
$531k
NIAID NIH HHS K08 AI079268NIAID NIH HHS K08AI079268NIAID NIH HHS P01 AI039671NIAID NIH HHS P01 AI065687NIAID NIH HHS P01 AI39671NIAID NIH HHS R01 AI091493PHS HHS BAA-05-011
6 · The paper itself

Abstract

CD28 is the major costimulatory receptor required for activation of naïve T cells, yet CD28 costimulation affects the expression level of surprisingly few genes over those altered by TCR stimulation alone. Alternate splicing of genes adds diversity to the proteome and contributes to tissue-specific regulation of genes. Here we demonstrate that CD28 costimulation leads to major changes in alternative splicing during activation of naïve T cells, beyond the effects of TCR alone. CD28 costimulation affected many more genes through modulation of alternate splicing than by modulation of transcription. Different families of biological processes are over-represented among genes alternatively spliced in response to CD28 costimulation compared to those genes whose transcription is altered, suggesting that alternative splicing regulates distinct biological effects. Moreover, genes dependent upon hnRNPLL, a global regulator of splicing in activated T cells, were enriched in T cells activated through TCR plus CD28 as compared to TCR alone. We show that hnRNPLL expression is dependent on CD28 signaling, providing a mechanism by which CD28 can regulate splicing in T cells and insight into how hnRNPLL can influence signal-induced alternative splicing in T cells. The effects of CD28 on alternative splicing provide a newly appreciated means by which CD28 can regulate T cell responses.

Indexed as

Alternative SplicingAnimalsAntigens, Differentiation, T-LymphocyteCD28 AntigensCD4-Positive T-LymphocytesDown-RegulationGene Expression ProfilingGenomeHeterogeneous-Nuclear RibonucleoproteinsInterleukin-3Lymphocyte ActivationMiceMice, Inbred C57BLReceptors, Antigen, T-CellReceptors, CCRRNA, MessengerAntigens, Differentiation, T-LymphocyteCC chemokine receptor 9CD28 AntigensHeterogeneous-Nuclear RibonucleoproteinshnRNPLL protein, mouseInterleukin-3Receptors, Antigen, T-CellReceptors, CCRRNA, MessengerT Lineage-Specific Activation Antigen 1

Identifiers

PMID22768209
PMCPMC3386953
OpenAlexW2087989128

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.