Evidence map›Paper›PMID 18056287›Full record

ArticleThe Journal of experimental medicine2007

Multiple, conserved cryptic recombination signals in VH gene segments: detection of cleavage products only in pro B cells.

Marco Davila, Feifei Liu, Lindsay G Cowell, Anne E Lieberman, Emily Heikamp, Anjali Patel, Garnett Kelsoe

Abstract read
In one paragraph

Article in The Journal of experimental medicine, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.

0numbers the graph read from it
0cells of the map it votes in
23citing 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

23 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Heavy-chain receptor editing unbound.Proceedings of the National Academy of Sciences of the United States of America · 2015
    Article
  7. VH replacement in primary immunoglobulin repertoire diversification.Proceedings of the National Academy of Sciences of the United States of America · 2015
    Article
  8. Antibody repertoire diversification through VH gene replacement in mice cloned from an IgA plasma cell.Proceedings of the National Academy of Sciences of the United States of America · 2015
    Article
  9. Article
  10. Article
  11. Trials and Tribulations with VH Replacement.Frontiers in immunology · 2014
    Review
  12. Article
  13. Article
  14. Article
  15. Article
  16. Alternative mechanisms of receptor editing in autoreactive B cells.Proceedings of the National Academy of Sciences of the United States of America · 2011
    Article
  17. B cell receptor editing in tolerance and autoimmunity.Annals of the New York Academy of Sciences · 2011
    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

7 authors.

Marco DavilaDepartment of Immunology, Duke University, Durham, NC 27710, USA.
Feifei Liu
Lindsay G Cowell
Anne E Lieberman
Emily Heikamp
Anjali Patel
Garnett Kelsoe

Funding

Viral Sequencing CoreU19AI067854 · NIAID · DUKE UNIVERSITY · PI CRUMP, JOHN ANDREW · 2006 to 2011
$290.5M
Supplement - Inflammatory Triggers in B Cell AutoimmunityU19AI056363 · NIAID · DUKE UNIVERSITY · PI ST. CLAIR, EUGENE WILLIAM · 2003 to 2017
$35.3M
Viral and Host Determinants of HIV-1 TransmissionU01AI067854 · NIAID · DUKE UNIVERSITY · PI LETVIN, NORMAN L · 2005 to 2005
$14.9M
MURINE ANTIBODY REPERTOIRER01AI024335 · NIAID · UNIVERSITY OF TEXAS MEDICAL BR GALVESTON · PI KELSOE, GARNETT H · 1988 to 2010
$2.7M
NIAID NIH HHS AI 24335NIAID NIH HHS AI 56363NIAID NIH HHS AI 67854NIAID NIH HHS R01 AI024335NIAID NIH HHS U01 AI067854NIAID NIH HHS U19 AI056363NIAID NIH HHS U19 AI067854Wellcome Trust
6 · The paper itself

Abstract

Receptor editing is believed to play the major role in purging newly formed B cell compartments of autoreactivity by the induction of secondary V(D)J rearrangements. In the process of immunoglobulin heavy (H) chain editing, these secondary rearrangements are mediated by direct V(H)-to-J(H) joining or cryptic recombination signals (cRSs) within V(H) gene segments. Using a statistical model of RS, we have identified potential cRSs within V(H) gene segments at conserved sites flanking complementarity-determining regions 1 and 2. These cRSs are active in extrachromosomal recombination assays and cleaved during normal B cell development. Cleavage of multiple V(H) cRSs was observed in the bone marrow of C57BL/6 and RAG2:GFP and microMT congenic animals, and we determined that cRS cleavage efficiencies are 30-50-fold lower than a physiological RS. cRS signal ends are abundant in pro-B cells, including those recovered from microMT mice, but undetectable in pre- or immature B cells. Thus, V(H) cRS cleavage regularly occurs before the generation of functional preBCR and BCR. Conservation of cRSs distal from the 3' end of V(H) gene segments suggests a function for these cryptic signals other than V(H) gene replacement.

Indexed as

Recombination, GeneticAmino AcidsAnimalsBase SequenceB-LymphocytesDNA-Binding ProteinsFrameshift MutationGreen Fluorescent ProteinsHomeodomain ProteinsImmunoglobulin Variable RegionMiceMice, Inbred C57BLMice, KnockoutModels, GeneticMolecular Sequence DataProbabilityAmino AcidsDNA-Binding ProteinsGreen Fluorescent ProteinsHomeodomain ProteinsImmunoglobulin Variable RegionRAG-1 proteinRag2 protein, mouse

Identifiers

PMID18056287
PMCPMC2150985

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-SA
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.