XL-DNase-Seq: Footprinting Analysis of Dynamic Transcription Factors.
Methods Mol Biol
; 2846: 243-261, 2024.
Article
em En
| MEDLINE
| ID: mdl-39141240
ABSTRACT
We have developed a novel method for genomic footprinting of transcription factors (TFs) that detects potential gene regulatory relationships from DNase-seq data at the nucleotide level. We introduce an assay termed cross-link (XL)-DNase-seq, designed to capture chromatin interactions of dynamic TFs. A mild cross-linking step in XL-DNase-seq improves the detection of DNase-based footprints of dynamic TFs. The footprint strengths and detectability depend on an optimal cross-linking procedure. This method may help extract novel gene regulatory circuits involving previously undetectable TFs. The XL-DNase-seq method is illustrated here for activated mouse macrophage-like cells, which share several features with inflammatory macrophages.
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Base de dados:
MEDLINE
Assunto principal:
Fatores de Transcrição
/
Pegada de DNA
Idioma:
En
Ano de publicação:
2024
Tipo de documento:
Article