Work

Protocol for transcriptomic and epigenomic analysis of JAK inhibitor sensitivity in IFN-γ-primed human macrophages using ATAC-seq and RNA-seq

Year: 2025

Type: article

Abstract: Here, we present a protocol for integrating transcriptomic and epigenomic data to analyze Janus kinase (JAK) inhibitor sensitivity in interferon (IFN)-γ-primed human macrophages using assay for transposase-accessible chromatin using sequencing (ATAC-seq) and RNA sequencing (RNA-seq). We describe steps for ATAC-seq data generation, differential accessibility analysis, and transcription factor motif enrichment. We then detail procedures for integration with RNA-seq data. This systematic approach identifies epigenomic regulatory mechanisms underlying differential JAK inhibitor sensitivity. For complete details on the use and execution of this protocol, please refer to Kwon et al. 1

Source: STAR Protocols

DOI: 10.1016/j.xpro.2025.104238

Authors: Geunho Kwon, Junho Noh, Jaehyun Lee, Keunsoo Kang, Kyuho Kang

Institutions: Chungbuk National University, Dankook University

Language: English

Topic: Genomics and Chromatin Dynamics

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

SDG: Good health and well-being

Open Access status: gold

Estimated APC paid: $1,550