Evidence map›Paper›PMID 25596453›Full record

ArticleClinical immunology (Orlando, Fla.)2017

Clonal and constricted T cell repertoire in Common Variable Immune Deficiency.

Manish Ramesh, David Hamm, Noa Simchoni, Charlotte Cunningham-Rundles

Abstract read
In one paragraph

Article in Clinical immunology (Orlando, Fla.), 2017. 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, 42 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. T Cell Abnormalities in X-Linked Agammaglobulinaemia: an Updated Review.Clinical reviews in allergy & immunology · 2023
    Review
  5. Article
  6. Article
  7. NovelFrontiers in pediatrics · 2022
    Article
  8. Article
  9. Article
  10. Article
  11. Review
  12. Review
  13. Article
  14. Article
  15. Article
  16. Differentiation of Common Variable Immunodeficiency From IgG Deficiency.The journal of allergy and clinical immunology. In practice · 2019
    Article
  17. Review
  18. Article
  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

4 authors at 3 institutions in 1 country.

Manish RameshMontefiore Medical Center, Bronx, NY, USA.
David HammAdaptive Biotech, Seattle, WA, USA.
Noa SimchoniIcahn School of Medicine at Mount Sinai, New York, NY, USA.
Charlotte Cunningham-RundlesIcahn School of Medicine at Mount Sinai, New York, NY, USA.
Icahn School of Medicine at Mount Sinai · USAdaptive Biotechnologies (United States) · USMontefiore Medical Center · US

Funding

Regulation of IgA class switching in the intestinal mucosaP01AI061093 · NIAID · MOUNT SINAI SCHOOL OF MEDICINE OF NYU · PI CUNNINGHAM-RUNDLES, CHARLOTTE · 2004 to 2021
$29.8M
MOUNT SINAI MEDICAL SCIENTIST TRAINING PROGRAMT32GM007280 · NIGMS · MOUNT SINAI SCHOOL OF MEDICINE OF NYU · PI BARON, MARGARET H · 1985 to 2021
$22.8M
Resources to Assist Investigations in Primary Immunodeficiency Diseases (U24)U24AI086037 · NIAID · IMMUNE DEFICIENCY FOUNDATION · PI CUNNINGHAM-RUNDLES, CHARLOTTE · 2010 to 2019
$6.5M
TARGETING PRIMARY IMMUNODEFICIENCY AMONG MINORITIESR18AI048693 · NIAID · MOUNT SINAI SCHOOL OF MEDICINE OF NYU · PI CUNNINGHAM-RUNDLES, CHARLOTTE · 2000 to 2016
$6.2M
NIAID NIH HHS P01 AI061093NIAID NIH HHS R18 AI048693NIAID NIH HHS U24 AI086037NIGMS NIH HHS T32 GM007280
6 · The paper itself

Abstract

We used high throughput sequencing to examine the structure and composition of the T cell receptor β chain in Common Variable Immune Deficiency (CVID). TCRβ CDR3 regions were amplified and sequenced from genomic DNA of 44 adult CVID subjects and 22 healthy adults, using a high-throughput multiplex PCR. CVID TCRs had significantly less junctional diversity, fewer n-nucleotide insertions and deletions, and completely lacked a population of highly modified TCRs, with 13 or more V-gene nucleotide deletions, seen in healthy controls. The CVID CDR3 sequences were significantly more clonal than control DNA, and displayed unique V gene usage. Despite reduced junctional diversity, increased clonality and similar infectious exposures, DNA of CVID subjects shared fewer TCR sequences as compared to controls. These abnormalities are pervasive, found in out-of-frame sequences and thus independent of selection and were not associated with specific clinical complications. These data support an inherent T cell defect in CVID.

Indexed as

AdolescentAdultAgedCase-Control StudiesChildClone CellsCommon Variable ImmunodeficiencyComplementarity Determining RegionsFemaleGenetic VariationHigh-Throughput Nucleotide SequencingHumansMaleMiddle AgedMultiplex Polymerase Chain ReactionReceptors, Antigen, T-Cell, alpha-betaComplementarity Determining RegionsReceptors, Antigen, T-Cell, alpha-betaAdultClonalityClone sharingCMVCommon Variable Immune DeficiencyEBVHigh throughput sequencingJunctional diversityT cell receptorVDJ recombination

Identifiers

PMID25596453
PMCPMC4501913
OpenAlexW2069804447

What OpenQuestion holds

Textmetadata
LicenceTDM
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.