Evidence map›Paper›PMID 39464142›Full record

ArticlebioRxiv : the preprint server for biology2024

eQTL in diseased colon tissue identifies novel target genes associated with IBD.

Nina C Nishiyama, Sophie Silverstein, Kimberly Darlington, Meaghan M Kennedy Ng, Katelyn M Clough, Mikaela Bauer, Caroline Beasley, Akshatha Bharadwaj, Rajee Ganesan, Muneera R Kapadia and 10 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

20 authors.

Nina C NishiyamaCurriculum in Bioinformatics and Computational Biology, Department of Genetics, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Sophie SilversteinCenter for Gastrointestinal Biology and Disease, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Kimberly DarlingtonCenter for Gastrointestinal Biology and Disease, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Meaghan M Kennedy NgCurriculum in Bioinformatics and Computational Biology, Department of Genetics, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Katelyn M CloughCenter for Gastrointestinal Biology and Disease, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Mikaela BauerCenter for Gastrointestinal Biology and Disease, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Caroline BeasleyCenter for Gastrointestinal Biology and Disease, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Akshatha BharadwajDepartment of Genetics, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Rajee GanesanDepartment of Genetics, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Muneera R KapadiaDepartment of Surgery, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Gwen LauCenter for Gastrointestinal Biology and Disease, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Grace LianCenter for Gastrointestinal Biology and Disease, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Reza RahbarDepartment of Surgery, REX Healthcare of Wakefield, Raleigh, North Carolina, USA.
Timothy S SadiqDepartment of Surgery, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Matthew R SchanerCenter for Gastrointestinal Biology and Disease, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Jonathan StemDepartment of Surgery, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.
Jessica FritonDivision of Gastroenterology and Hepatology, Department of Medicine, Mayo Clinic, Rochester, Minnesota, USA.
William A FaubionDivision of Gastroenterology and Hepatology, Department of Medicine, Mayo Clinic, Rochester, Minnesota, USA.
Shehzad Z SheikhCenter for Gastrointestinal Biology and Disease, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.ORCID 0000-0002-4238-3674
Terrence S FureyCurriculum in Bioinformatics and Computational Biology, Department of Genetics, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA.ORCID 0000-0001-5546-9672

Funding

Virology Research Program (Program 4)P30CA016086 · NCI · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Deborah F. Tate · 1985 to 2026
$201.5M
UNC-CH CENTER FOR ENVIRONMENTAL HEALTH &SUSCEPTIBILITYP30ES010126 · NIEHS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Hazel B Nichols · 2001 to 2026
$36.3M
Role of IL-10 in APC Regulation of Protective vs. Pathogenic T Cell Responses toP01DK094779 · NIDDK · UNIV OF NORTH CAROLINA CHAPEL HILL · PI SARTOR, RYAN B · 2013 to 2023
$17.9M
GASTROENTEROLOGY RESEARCH TRAININGT32DK007737 · NIDDK · UNIV OF NORTH CAROLINA CHAPEL HILL · PI SHEHZAD Z. SHEIKH · 1996 to 2026
$7.8M
KLF10 regulates colitis through mediating TGFb induction of FOXP3 in Treg cells.R01AI089714 · NIAID · MAYO CLINIC ROCHESTER · PI FAUBION, WILLIAM A · 2011 to 2025
$6.3M
High throughput functional studies of IBD-associated GWAS variantsR01DK136262 · NIDDK · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Terrence S. Furey, SHEHZAD Z. SHEIKH · 2023 to 2026
$2.6M
Predoctoral Training Program in Bioinformatics and Computational BiologyT32GM135123 · NIGMS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Michael Isaiah Love, William Valdar · 2021 to 2026
$1.7M
Multi-omic characterization of genetic variants in IBD risk lociR01DK138462 · NIDDK · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Terrence S. Furey, SHEHZAD Z. SHEIKH · 2024 to 2026
$1.4M
Using molecular quantitative trait loci mapping approaches to determine candidate gene regulatory mechanisms of functional variants within inflammatory bowel disease GWAS loci.F31DK137574 · NIDDK · UNIV OF NORTH CAROLINA CHAPEL HILL · PI NISHIYAMA, NINA · 2024 to 2025
$85k
NCI NIH HHS P30 CA016086NIAID NIH HHS R01 AI089714NIDDK NIH HHS F31 DK137574NIDDK NIH HHS P01 DK094779NIDDK NIH HHS R01 DK136262NIDDK NIH HHS R01 DK138462NIDDK NIH HHS T32 DK007737NIEHS NIH HHS P30 ES010126NIGMS NIH HHS T32 GM135123
6 · The paper itself

Abstract

Genome-wide association studies (GWAS) have identified over 300 loci associated with the inflammatory bowel diseases (IBD), but putative causal genes for most are unknown. We conducted the largest disease-focused expression quantitative trait loci (eQTL) analysis using colon tissue from 252 IBD patients to determine genetic effects on gene expression and potential contribution to IBD. Combined with two non-IBD colon eQTL studies, we identified 194 potential target genes for 108 GWAS loci. eQTL in IBD tissue were enriched for IBD GWAS loci colocalizations, provided novel evidence for IBD-associated genes such as

Identifiers

PMID39464142
PMCPMC11507739

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.