Article

Greenscreen decreases Type I Errors and increases true peak detection in genomic datasets including ChIP-seq

2022-03-01

Abstract excerpt

Chromatin immunoprecipitation followed by sequencing (ChIP-seq) is used widely to identify both factor binding to genomic DNA and chromatin modifications. Analysis of ChIP-seq data is impacted by regions of the genome which generate ultra-high artifactual signals. To remove these signals from ChIP-seq data, ENCODE developed blacklists, comprehensive sets of regions defined by low mappability and ultra-high signals...

Topics

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

Identifiers and source

Literature Corpus work: b2e20e75-abf4-55e9-8cbd-92ddeec918d8
DOI: 10.1101/2022.02.27.482177

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Greenscreen decreases Type I Errors and increases true peak detection in genomic datasets including ChIP-seqDOI 10.1101/2022.02.27.482177Read

fCUT&Tag-Seq: An Optimized CUT&Tag-based Method for High-Resolution Profiling of Histone Modifications and Chromatin-Binding Proteins in FungiSemantic proximity Read

PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls.Semantic proximity Read

CHIPS: A Snakemake pipeline for quality control and reproducible processing of chromatin profiling dataSemantic proximity Read

Robust chromatin state annotationSemantic proximity Read

CUT&Tag recovers up to half of ENCODE ChIP-seq histone acetylation peaksSemantic proximity Read

Exhaustive identification of genome-wide binding events of transcriptional regulators with ICEBERGSemantic proximity Read

CHIPS: A Snakemake pipeline for quality control and reproducible processing of chromatin profiling dataSemantic proximity Read

Optimized functional annotation of ChIP-seq dataSemantic proximity Read

Optimized functional annotation of ChIP-seq dataSemantic proximity Read

Exhaustive identification of genome-wide binding events of transcriptional regulators with ICEBERGSemantic proximity Read

LanceOtron: a deep learning peak caller for ATAC-seq, ChIP-seq, and DNase-seqSemantic proximity Read

SNP-ChIP: A versatile and tag-free method to quantify changes in protein binding across the genomeSemantic proximity Read