Evidence map›Paper›PMID 25182136›Full record

ArticleEuropean journal of human genetics : EJHG2015

Fine mapping of eight psoriasis susceptibility loci.

Sayantan Das, Philip E Stuart, Jun Ding, Trilokraj Tejasvi, Yanming Li, Lam C Tsoi, Vinod Chandran, Judith Fischer, Cynthia Helms, Kristina Callis Duffin and 9 more

Open access · bronzeAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in European journal of human genetics : EJHG, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers, 3 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
17citing papers in PubMed, 3 pooled it
1.3field-weighted citation impact, top 21% 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

17 citing papers in PubMed, 3 syntheses or guidelines pooled it, 30 citations in OpenAlex.

  1. Pooled it
  2. Pooled it
  3. Pooled it
  4. Article
  5. Review
  6. Review
  7. Review
  8. Psoriasis and Genetics.Acta dermato-venereologica · 2020
    Review
  9. Review
  10. Article
  11. Article
  12. Review
  13. Article
  14. Article
  15. Strategies for fine-mapping complex traits.Human molecular genetics · 2015
    Review
  16. Article
  17. 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

19 authors at 6 institutions in 3 countries.

Sayantan DasDepartment of Biostatistics, Center for Statistical Genetics, University of Michigan, Ann Arbor, MI, USA.
Philip E StuartDepartment of Dermatology, University of Michigan, Ann Arbor, MI, USA.
Jun Ding1] Department of Biostatistics, Center for Statistical Genetics, University of Michigan, Ann Arbor, MI, USA [2] Laboratory of Genetics, National Institute on Aging, National Institutes of Health, Baltimore, MD, USA.
Trilokraj TejasviDepartment of Dermatology, University of Michigan, Ann Arbor, MI, USA.
Yanming LiDepartment of Biostatistics, Center for Statistical Genetics, University of Michigan, Ann Arbor, MI, USA.
Lam C TsoiDepartment of Biostatistics, Center for Statistical Genetics, University of Michigan, Ann Arbor, MI, USA.
Vinod ChandranDivision of Rheumatology, Department of Medicine, University of Toronto, Toronto, ON, Canada.
Judith FischerCentre National de Génotypage, Institut Génomique, Commissariat à l'Énergie Atomique, Evry, France.
Cynthia HelmsNational Heart and Lung Institute, Imperial College London, London, UK.
Kristina Callis DuffinDepartment of Dermatology, University of Utah, Salt Lake City, UT, USA.
John J VoorheesDepartment of Dermatology, University of Michigan, Ann Arbor, MI, USA.
Anne M BowcockNational Heart and Lung Institute, Imperial College London, London, UK.
Gerald G KruegerDepartment of Dermatology, University of Utah, Salt Lake City, UT, USA.
G Mark LathropCentre National de Génotypage, Institut Génomique, Commissariat à l'Énergie Atomique, Evry, France.
Rajan P NairDepartment of Dermatology, University of Michigan, Ann Arbor, MI, USA.
Proton RahmanDepartment of Medicine, Memorial University, St John's, NL, Canada.
Goncalo R AbecasisDepartment of Biostatistics, Center for Statistical Genetics, University of Michigan, Ann Arbor, MI, USA.
Dafna Gladman1] Division of Rheumatology, Department of Medicine, University of Toronto, Toronto, ON, Canada [2] Psoriatic Arthritis Program, Centre for Prognosis Studies in the Rheumatic Diseases, Toronto Western Research Institute, Toronto, ON, Canada.
James T Elder1] Department of Dermatology, University of Michigan, Ann Arbor, MI, USA [2] Ann-Arbor Veteran Affairs Hospital, Ann Arbor, MI, USA.
University of Michigan–Ann Arbor · USImperial College London · GBUniversity of Toronto · CAUniversity of Utah · USMemorial University of Newfoundland · CAStatistical Research (United States) · US

Funding

Type 1 Diabetes Genetics ConsortiumU01DK062418 · NIDDK · WAKE FOREST UNIVERSITY HEALTH SCIENCES · PI RICH, STEPHEN S. · 2002 to 2007
$59.8M
Linkage analysis of familial psoriasis(Supplement)R01AR042742 · NIAMS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI ELDER, JAMES TILFORD · 1994 to 2021
$10.1M
Genetic and Genomic Dissection of Psoriatic ArthritisR01AR063611 · NIAMS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI ELDER, JAMES TILFORD, GLADMAN, DAFNA D · 2012 to 2023
$6.2M
Genome-Wide SNP Association in PsoriasisR01AR050266 · NIAMS · WASHINGTON UNIVERSITY · PI BOWCOCK, ANNE MARY · 2007 to 2016
$5.7M
Identification of Psoriatic Arthritis Genes in the MHCR01AR050511 · NIAMS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI ELDER, JAMES TILFORD · 2004 to 2013
$4.2M
Combined Analysis of Gene Expression and DNA Variation in PsoriasisR01AR054966 · NIAMS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI ELDER, JAMES TILFORD · 2007 to 2011
$3.2M
Functional Genomics of PsoriasisR01AR065183 · NIAMS · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI ELDER, JAMES TILFORD · 2013 to 2016
$1.7M
CIHRNIAMS NIH HHS R01 AR042742NIAMS NIH HHS R01AR042742NIAMS NIH HHS R01 AR050266NIAMS NIH HHS R01AR050266NIAMS NIH HHS R01 AR050511NIAMS NIH HHS R01AR050511NIAMS NIH HHS R01 AR054966NIAMS NIH HHS R01AR054966NIAMS NIH HHS R01AR062382NIAMS NIH HHS R01 AR063611NIAMS NIH HHS R01 AR065183NIDDK NIH HHS U01 DK062418
6 · The paper itself

Abstract

Previous studies have identified 41 independent genome-wide significant psoriasis susceptibility loci. After our first psoriasis genome-wide association study, we designed a custom genotyping array to fine-map eight genome-wide significant susceptibility loci known at that time (IL23R, IL13, IL12B, TNIP1, MHC, TNFAIP3, IL23A and RNF114) enabling genotyping of 2269 single-nucleotide polymorphisms (SNPs) in the eight loci for 2699 psoriasis cases and 2107 unaffected controls of European ancestry. We imputed these data using the latest 1000 Genome reference haplotypes, which included both indels and SNPs, to increase the marker density of the eight loci to 49 239 genetic variants. Using stepwise conditional association analysis, we identified nine independent signals distributed across six of the eight loci. In the major histocompatibility complex (MHC) region, we detected three independent signals at rs114255771 (P = 2.94 × 10(-74)), rs6924962 (P = 3.21 × 10(-19)) and rs892666 (P = 1.11 × 10(-10)). Near IL12B we detected two independent signals at rs62377586 (P = 7.42 × 10(-16)) and rs918518 (P = 3.22 × 10(-11)). Only one signal was observed in each of the TNIP1 (rs17728338; P = 4.15 × 10(-13)), IL13 (rs1295685; P = 1.65 × 10(-7)), IL23A (rs61937678; P = 1.82 × 10(-7)) and TNFAIP3 (rs642627; P = 5.90 × 10(-7)) regions. We also imputed variants for eight HLA genes and found that SNP rs114255771 yielded a more significant association than any HLA allele or amino-acid residue. Further analysis revealed that the HLA-C*06-B*57 haplotype tagged by this SNP had a significantly higher odds ratio than other HLA-C*06-bearing haplotypes. The results demonstrate allelic heterogeneity at IL12B and identify a high-risk MHC class I haplotype, consistent with the existence of multiple psoriasis effectors in the MHC.

Indexed as

Genetic LociPolymorphism, Single NucleotideCarrier ProteinsDNA-Binding ProteinsGenetic Predisposition to DiseaseHLA AntigensHumansInterleukinsIntracellular Signaling Peptides and ProteinsNuclear ProteinsPsoriasisReceptors, InterleukinTumor Necrosis Factor alpha-Induced Protein 3Ubiquitin-Protein LigasesCarrier ProteinsDNA-Binding ProteinsHLA AntigensIL23R protein, humanInterleukinsIntracellular Signaling Peptides and ProteinsNuclear ProteinsReceptors, InterleukinRNF114 protein, humanTNFAIP3 protein, humanTNIP1 protein, humanTumor Necrosis Factor alpha-Induced Protein 3Ubiquitin-Protein Ligases

Identifiers

PMID25182136
PMCPMC4795047
OpenAlexW1972613508

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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.