Discover Community Create You

Loading publication...

Noodle always counts identifier-free feature events for service operation. With your permission, Google Analytics can also estimate audience and engagement. Search text, publication identifiers, cookies, IP addresses and browser fingerprints are never included in Noodle's first-party event counters.

Privacy details

Article

Identifying genetic variants associated with chromatin looping and genome function.

Nature communications - 18 Sept 2024

Bhattacharyya Sourya, Ay Ferhat

Abstract excerpt

Here we present a comprehensive HiChIP dataset on naïve CD4 T cells (nCD4) from 30 donors and identify QTLs that associate with genotype-dependent and/or allele-specific variation of HiChIP contacts defining loops between active regulatory regions (iQTLs). We observe a substantial overlap between iQTLs and previously defined eQTLs and histone QTLs, and an enrichment for fine-mapped QTLs and GWAS variants....

Read the complete abstract on PubMed

Topics

Share this publication in a Topic to start or enrich a Post.

Share to Alleles
Share to CD4-Positive T-Lymphocytes
Share to Chromatin

Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

Share to Genetic Variation

Share to Genome, Human

Share to Genome-Wide Association Study

Share to Histones

Share to Quantitative Trait Loci

Source

Open in PubMed Open full text

Identifiers

PMID: 39289357
DOI: 10.1038/s41467-024-52296-4
PMCID: PMC11408621

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-08.1.

Source receipt: pubmed, retrieved 7 Sept 2026.

Related research

Semantic proximity does not establish scientific evidence.

Research trail→

Click a neighbor to travelStep 1 · 12 closest

Identifying genetic variants associated with chromatin looping and genome function.PMID 39289357Read ↗

Loop Catalog: a comprehensive HiChIP database of human and mouse samplesSemantic proximity Read ↗

Chromatin conformation dynamics during CD4+ T cell activation implicates autoimmune disease-associated genes and regulatory elementsSemantic proximity Read ↗

Integration of phased Hi-C and molecular phenotype data to study genetic and epigenetic effects on chromatin loopingSemantic proximity Read ↗

Inference of multi-enhancer interactions in T lymphocytes using Hi-CocietySemantic proximity Read ↗

Detailed Regulatory Interaction Map of the Human Heart Facilitates Gene Discovery for Cardiovascular DiseaseSemantic proximity Read ↗

Most regulatory interactions are not in linkage disequilibriumSemantic proximity Read ↗

HiC-LDNet: A general and robust deep learning framework for accurate chromatin loop detection in genome-wide contact mapsSemantic proximity Read ↗

CLASH (Chromatin Loop Across-sample Score Harmonizer) quantifies the relative contributions of genetic variation, methylation, and CTCF occupancy on chromatin loop strength across individualsSemantic proximity Read ↗

3DeFDR: Identifying cell type-specific looping interactions with empirical false discovery rate guided thresholdingSemantic proximity Read ↗

Genetic determinants of co-accessible chromatin regions in activated T cells across humans.Semantic proximity Read ↗

DeepLoop robustly maps chromatin interactions from sparse allele-resolved or single-cell Hi-C data at kilobase resolution.Semantic proximity Read ↗

DeepTACT: predicting high-resolution chromatin contacts via bootstrapping deep learningSemantic proximity Read ↗

⌁Select a neighboring publication to make it the new centre.