Article

HyDrop v2: Scalable atlas construction for training sequence-to-function models

2025-04-04

Abstract excerpt

<h4>Summary</h4> Deciphering cis-regulatory logic underlying cell type identity is a fundamental question in biology. Single-cell chromatin accessibility (scATAC-seq) data has enabled training of sequence-to-function deep learning models allowing decoding of enhancer logic and design of synthetic enhancers. Training such models requires large amounts of high-quality training data across species, organs, developme...

Topics

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

Identifiers and source

Literature Corpus work: 8b293c15-ef34-59cf-8f5b-8930341c50d7
DOI: 10.1101/2025.04.02.646792

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

HyDrop v2: Scalable atlas construction for training sequence-to-function modelsDOI 10.1101/2025.04.02.646792Read

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

Tissue-specific enhancer-gene maps from multimodal single-cell data identify causal disease alleles.Semantic proximity Read

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

AENetMoX: Fast and Precise scRNA-seq Gene Regulatory Network Inference Through Multi-Modal Feature Integration in Brain OrganoidsSemantic proximity Read

Tissue-specific enhancer-gene maps from multimodal single-cell data identify causal disease allelesSemantic proximity Read

Puget predicts gene expression across cell types using sequence and 3D chromatin organization dataSemantic proximity Read

AtacWorks: A deep convolutional neural network toolkit for epigenomicsSemantic proximity Read

Virtual ChIP-seq: predicting transcription factor binding by learning from the transcriptomeSemantic proximity Read

txci-ATAC-seq, a massive-scale single-cell technique to profile chromatin accessibilitySemantic proximity Read

DECODE: A <i>De</i> ep-learning Framework for <i>Co</i> n <i>de</i> nsing Enhancers and Refining Boundaries with Large-scale Functional AssaysSemantic proximity Read

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

Evolutionary transfer learning enables organism-wide inference of mammalian enhancer landscapesSemantic proximity Read