CRUP: a comprehensive framework to predict condition-specific regulatory units.
Genome Biol
; 20(1): 227, 2019 11 08.
Article
em En
| MEDLINE
| ID: mdl-31699133
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 applied across cell types and species, solely based on histone modification ChIP-seq data. Enhancers are subsequently assigned to different conditions and correlated with gene expression to derive regulatory units. We thoroughly test and then apply CRUP to a rheumatoid arthritis model, identifying enhancer-gene pairs comprising known disease genes as well as new candidate genes.
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MEDLINE
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Software
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Elementos Facilitadores Genéticos
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En
Ano de publicação:
2019
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Article