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Article

Protocol for discovering genetic variants associated with ATAC-seq footprint-inferred transcription factor binding.

STAR protocols - 19 Dec 2025

Dudek Max F, Wenz Brandon M, Voight Benjamin F, Almasy Laura, Grant Struan F A

Abstract excerpt

Transcription factor (TF) binding is detectable in assay for transposase-accessible chromatin using sequencing (ATAC-seq) experiments, where bound TFs block transposase insertions, leaving a depletion of insertions known as a "footprint." Here, we present a computational protocol for detecting genetic variants associated with footprint-inferred TF binding. We describe steps to run the PRINT footprinting software...

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Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

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Identifiers

PMID: 41108684
DOI: 10.1016/j.xpro.2025.104148
PMCID: PMC12554165

Genes

TF

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