CRUP: a comprehensive framework to predict condition-specific regulatory units

Abstract We present the software Condition-specific Regulatory Units Prediction (CRUP) to infer from epigenetic marks a list of regulatory units consisting of dynamically changing enhancers with their target genes. The workflow consists of a novel pre-trained enhancer predictor that can be reliably...

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Main Authors: Anna Ramisch, Verena Heinrich, Laura V. Glaser, Alisa Fuchs, Xinyi Yang, Philipp Benner, Robert Schöpflin, Na Li, Sarah Kinkley, Anja Römer-Hillmann, John Longinotto, Steffen Heyne, Beate Czepukojc, Sonja M. Kessler, Alexandra K. Kiemer, Cristina Cadenas, Laura Arrigoni, Nina Gasparoni, Thomas Manke, Thomas Pap, John A. Pospisilik, Jan Hengstler, Jörn Walter, Sebastiaan H. Meijsing, Ho-Ryun Chung, Martin Vingron
Formato: Artigo
Idioma:Inglês
Publicado em: BMC 2019-11-01
Colecção:Genome Biology
Assuntos:
Enhancer prediction
Enhancer dynamics
Gene regulation
Epigenetics
Random forest
Differential analysis
Acesso em linha:http://link.springer.com/article/10.1186/s13059-019-1860-7
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