Evidence map›Paper›PMID 23382652›Full record

ArticlePLoS biology2013

Localized DNA demethylation at recombination intermediates during immunoglobulin heavy chain gene assembly.

Roza Selimyan, Rachel M Gerstein, Irina Ivanova, Patricia Precht, Ramesh Subrahmanyam, Thomas Perlot, Frederick W Alt, Ranjan Sen

Open access · goldAbstract read
In one paragraph

Article in PLoS biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
1.6field-weighted citation impact, top 17% 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

14 citing papers in PubMed, 25 citations in OpenAlex.

  1. Article
  2. Epigenetic Alterations in Inborn Errors of Immunity.Journal of clinical medicine · 2022
    Review
  3. Article
  4. Alterations in chromatin at antigen receptor loci define lineage progression during B lymphopoiesis.Proceedings of the National Academy of Sciences of the United States of America · 2020
    Article
  5. Article
  6. Article
  7. Misregulation of theFrontiers in immunology · 2018
    Article
  8. Review
  9. Review
  10. Article
  11. Article
  12. Histone methylation and V(D)J recombination.International journal of hematology · 2014
    Review
  13. Review
  14. Review
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

8 authors at 4 institutions in 1 country.

Roza SelimyanLaboratory of Molecular Biology and Immunology, National Institute on Aging, National Institutes of Health, Baltimore, Maryland, United States of America.
Rachel M Gerstein
Irina Ivanova
Patricia Precht
Ramesh Subrahmanyam
Thomas Perlot
Frederick W Alt
Ranjan Sen
National Institutes of Health · USHoward Hughes Medical Institute · USNational Institute on Aging · USUniversity of Massachusetts Chan Medical School · US

Funding

PILOT AND FEASIBILITY PROGRAMP30DK032520 · NIDDK · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI CZECH, MICHAEL P · 1986 to 2010
$14.6M
Mechanisms that Control IgH Variable Region Exon AssemblyR01AI020047 · NIAID · IMMUNE DISEASE INSTITUTE, INC. · PI ALT, FREDERICK W. · 1985 to 2025
$14.1M
Gene Regulation in LymphocytesZIAAG000383 · NIA · NATIONAL INSTITUTE ON AGING · PI SEN, RANJAN · 2009 to 2025
$8.2M
Activation and inactivation of VH gene recombinationZIAAG000372 · NIA · NATIONAL INSTITUTE ON AGING · PI SEN, RANJAN · 2009 to 2021
$4.9M
REGULATION OF V(D)J RECOMBINATION IN B CELL DEVELOPMENTR01AI043534 · NIAID · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI GERSTEIN, RACHEL M. · 2000 to 2011
$3.1M
Regulation of V(D)J recombination in B cell developmentR56AI043534 · NIAID · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI GERSTEIN, RACHEL M. · 2005 to 2005
$357k
Intramural NIH HHSNIAID NIH HHS AI 2047NIAID NIH HHS AI 43534NIAID NIH HHS R01 AI020047NIAID NIH HHS R01 AI043534NIAID NIH HHS R56 AI043534NIDDK NIH HHS P30 DK032520NIDDK NIH HHS P30DK32520
6 · The paper itself

Abstract

Multiple epigenetic marks have been proposed to contribute to the regulation of antigen receptor gene assembly via V(D)J recombination. Here we provide a comprehensive view of DNA methylation at the immunoglobulin heavy chain (IgH) gene locus prior to and during V(D)J recombination. DNA methylation did not correlate with the histone modification state on unrearranged alleles, indicating that these epigenetic marks were regulated independently. Instead, pockets of tissue-specific demethylation were restricted to DNase I hypersensitive sites within this locus. Though unrearranged diversity (D(H)) and joining (J(H)) gene segments were methylated, DJ(H) junctions created after the first recombination step were largely demethylated in pro-, pre-, and mature B cells. Junctional demethylation was highly localized, B-lineage-specific, and required an intact tissue-specific enhancer, Eμ. We propose that demethylation occurs after the first recombination step and may mark the junction for secondary recombination.

Indexed as

DNA MethylationGene Rearrangement, B-Lymphocyte, Heavy ChainV(D)J RecombinationAnimalsB-LymphocytesCpG IslandsDeoxyribonuclease IDNA-Binding ProteinsEnhancer Elements, GeneticGenes, Immunoglobulin Heavy ChainHistonesImmunoglobulin Heavy ChainsImmunoglobulin Variable RegionMiceMice, Inbred C57BLMice, KnockoutDeoxyribonuclease IDNA-Binding ProteinsHistonesImmunoglobulin Heavy ChainsImmunoglobulin Variable RegionRag2 protein, mouse

Identifiers

PMID23382652
PMCPMC3558432
OpenAlexW1990744021

What OpenQuestion holds

Textmetadata
LicenceCC0
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.