Article

Peak-agnostic high-resolution cis-regulatory circuitry mapping using single cell multiome data

2023-06-24

Abstract excerpt

Single same cell RNAseq/ATACseq multiome data provide unparalleled potential to develop high resolution maps of the cell-type specific transcriptional regulatory circuitry underlying gene expression. We present CREMA, a framework that recovers the full cis-regulatory circuitry by modeling gene expression and chromatin activity in individual cells without peak-calling or cell type labeling constraints. We demonstra...

Topics

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

Identifiers and source

Literature Corpus work: 4aa931b9-1f1c-5e51-9c27-a1f71cf070ff
DOI: 10.1101/2023.06.23.544355

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Peak-agnostic high-resolution cis-regulatory circuitry mapping using single cell multiome dataDOI 10.1101/2023.06.23.544355Read

Genome-scale mapping of variant, enhancer and gene function in primary human CD4+ T cellsSemantic proximity Read

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

Deconvolution of single-cell multi-omics layers reveals regulatory heterogeneitySemantic proximity Read

Airqtl dissects cell state-specific causal gene regulatory networks with efficient single-cell eQTL mappingSemantic proximity Read

High-resolution reconstruction of cell-type specific transcriptional regulatory processes from bulk sequencing samplesSemantic proximity Read

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

A single-cell atlas of transcribed <i>cis</i> -regulatory elements in the human genomeSemantic proximity Read

CoRE-ATAC: A deep learning model for the functional classification of regulatory elements from single cell and bulk ATAC-seq dataSemantic proximity Read

SCENIC: Single-cell regulatory network inference and clusteringSemantic proximity Read

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

Genetic regulation of cell type–specific chromatin accessibility shapes immune function and disease riskSemantic proximity Read

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