Evidence map›Paper›PMID 12823858›Full record

ArticleArthritis research & therapy2003

DEK binding to class II MHC Y-box sequences is gene- and allele-specific.

Barbara S Adams, Hyuk C Cha, Joanne Cleary, Tan Haiying, Hongling Wang, Kajal Sitwala, David M Markovitz

Open access · goldAbstract read
In one paragraph

Article in Arthritis research & therapy, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
0.8field-weighted citation impact, top 31% 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

13 citing papers in PubMed, 23 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Review
  6. Article
  7. Intercellular trafficking of the nuclear oncoprotein DEK.Proceedings of the National Academy of Sciences of the United States of America · 2013
    Article
  8. Article
  9. Solution NMR structure of the N-terminal domain of the human DEK protein.Protein science : a publication of the Protein Society · 2008
    Article
  10. Article
  11. Solution NMR structure of the C-terminal domain of the human protein DEK.Protein science : a publication of the Protein Society · 2004
    Article
  12. Article
  13. 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 at 1 institution in 1 country.

Barbara S AdamsDepartment of Pediatrics, Division of Pediatric Rheumatology, University of Michigan School of Medicine, Ann Arbor, MI, USA.
Hyuk C Cha
Joanne Cleary
Tan Haiying
Hongling Wang
Kajal Sitwala
David M Markovitz
University of Michigan–Ann Arbor · US

Funding

REGULATION OF HIV2 TRANSCRIPTION BY THE PETS FACTORR01AI036685 · NIAID · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI MARKOVITZ, DAVID MICHAEL · 1994 to 2002
$929k
NIAID NIH HHS AI36685
6 · The paper itself

Abstract

Using electrophoretic mobility shift assays, we examined sequence-specific binding of DEK, a potential autoantigen in juvenile rheumatoid arthritis, to conserved Y-box regulatory sequences in class II MHC gene promoters. Nuclear extracts from several cell lines of different phenotypes contained sequence-specific binding activity recognizing DRA, DQA1*0101, and DQA1*0501 Y-box sequences. Participation of both DEK and NF-Y in the DQA1 Y-box binding complex was confirmed by 'supershifting' with anti-DEK and anti-NF-Y antibodies. Recombinant DEK also bound specifically to the DQA1*0101 Y box and to the polymorphic DQA1*0501 Y box, but not to the consensus DRA Y box. Measurement of the apparent dissociation constants demonstrated a two- to fivefold difference in DEK binding to the DQA1 Y-box sequence in comparison with other class II MHC Y-box sequences. Residues that are crucial for DEK binding to the DQA1*0101 Y box were identified by DNase I footprinting. The specific characteristics of DEK binding to these related sequences suggests a potential role for DEK in differential regulation of class II MHC expression, and thus in the pathogenesis of juvenile rheumatoid arthritis and other autoimmune diseases.

Indexed as

Chromosomal Proteins, Non-HistoneGenes, MHC Class IIRegulatory Sequences, Nucleic AcidAllelesAutoantigensBinding SitesCCAAT-Binding FactorCell ExtractsCell LineCell NucleusConsensus SequenceDNA FootprintingElectrophoretic Mobility Shift AssayHLA-DQ alpha-ChainsHLA-DQ AntigensHumansAutoantigensCCAAT-Binding FactorCell ExtractsChromosomal Proteins, Non-HistoneDEK protein, humanHLA-DQA1 antigenHLA-DQ alpha-ChainsHLA-DQ AntigensMacromolecular SubstancesOncogene ProteinsPoly-ADP-Ribose Binding Proteins

Identifiers

PMID12823858
PMCPMC165066
OpenAlexW1578597835

What OpenQuestion holds

Textmetadata
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.