Article

Predicting enhancer-gene links from single-cell multi-omics data by integrating prior Hi-C information

2025-10-09

Abstract excerpt

Enhancers play an important role in transcriptional regulation by modulating gene expression from distal genomic locations. Although single-cell ATAC and RNA sequencing (scATAC/RNA-seq) data have been leveraged to infer enhancer-gene links, establishing regulatory links between enhancers and their target genes remains a challenge due to the absence of chromatin conformation information. Here, we present SCEG-HiC,...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 8f48d61e-f4b1-5b7f-b042-ad1e3e885bc2
DOI: 10.1101/2025.10.09.681330

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Predicting enhancer-gene links from single-cell multi-omics data by integrating prior Hi-C informationDOI 10.1101/2025.10.09.681330Read

Mapping enhancer-gene regulatory interactions from single-cell dataSemantic proximity Read

An extensive enhancer-promoter map generated by genome-scale analysis of enhancer and gene activity patternsSemantic proximity Read

BARTsc identifies key transcriptional regulators from single-cell omics dataSemantic proximity Read

scMEGA: single-cell multi-omic enhancer-based gene regulatory network inferenceSemantic proximity Read

SCENIC+: single-cell multiomic inference of enhancers and gene regulatory networksSemantic proximity Read

BayesCNet: Bayesian inference for cell type-specific regulatory networks leveraging cell type hierarchy in single-cell dataSemantic proximity Read

A sequence-based global map of regulatory activity for deciphering human geneticsSemantic proximity Read

Predicting unrecognized enhancer-mediated genome topology by an ensemble machine learning modelSemantic proximity Read

UniversalEPI: robust prediction of cell type-specific and differential chromatin interactions from DNA sequence and chromatin accessibilitySemantic proximity Read

Low input capture Hi-C (liCHi-C) identifies promoter-enhancer interactions at high-resolutionSemantic proximity Read

Developing a general AI model for integrating diverse genomic modalities and comprehensive genomic knowledgeSemantic proximity Read

scMEGA: Single-cell Multiomic Enhancer-based Gene Regulatory Network InferenceSemantic proximity Read