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

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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Bibliographic Details
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
Format: Article
Language:English
Published: BMC 2019-11-01
Series:Genome Biology
Subjects:
Enhancer prediction
Enhancer dynamics
Gene regulation
Epigenetics
Random forest
Differential analysis
Online Access:http://link.springer.com/article/10.1186/s13059-019-1860-7

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http://link.springer.com/article/10.1186/s13059-019-1860-7

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