Wellington-bootstrap: differential DNase-seq footprinting identifies cell-type determining transcription factors.
BMC Genomics
; 16: 1000, 2015 Nov 25.
Article
en En
| MEDLINE
| ID: mdl-26608661
ABSTRACT
BACKGROUND:
The analysis of differential gene expression is a fundamental tool to relate gene regulation with specific biological processes. Differential binding of transcription factors (TFs) can drive differential gene expression. While DNase-seq data can provide global snapshots of TF binding, tools for detecting differential binding from pairs of DNase-seq data sets are lacking.RESULTS:
In order to link expression changes with changes in TF binding we introduce the concept of differential footprinting alongside a computational tool. We demonstrate that differential footprinting is associated with differential gene expression and can be used to define cell types by their specific TF occupancy patterns.CONCLUSIONS:
Our new tool, Wellington-bootstrap, will enable the detection of differential TF binding facilitating the study of gene regulatory systems.
Texto completo:
1
Banco de datos:
MEDLINE
Asunto principal:
Factores de Transcripción
/
Sitios de Unión
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Huella de ADN
/
Biología Computacional
/
Desoxirribonucleasas
/
Secuenciación de Nucleótidos de Alto Rendimiento
Tipo de estudio:
Prognostic_studies
Límite:
Humans
Idioma:
En
Año:
2015
Tipo del documento:
Article