Adversarial attack of sequence-free enhancer prediction identifies chromatin architecture
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DOI: 10.1093/bioinformatics/btaf371
Abstract: Abstract Motivation The wide range of cellular complexity created by multicellular organisms is due in large part to the intricate and synergistic interplay of regulatory complexes throughout the eukaryotic genome. These regulatory elements “enhance” specific… read more here.
Keywords: enhancer prediction; attack sequence; enhancer; adversarial attack ... See more keywords
Computational enhancer prediction: evaluation and improvements
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DOI: 10.1186/s12859-019-2781-x
Abstract: BackgroundIdentifying transcriptional enhancers and other cis-regulatory modules (CRMs) is an important goal of post-sequencing genome annotation. Computational approaches provide a useful complement to empirical methods for CRM discovery, but it is critical that we develop… read more here.
Keywords: pcrmeval; sensitivity; evaluation; enhancer prediction ... See more keywords
Enhancer prediction in the human genome by probabilistic modelling of the chromatin feature patterns
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DOI: 10.1186/s12859-020-03621-3
Abstract: Background The binding sites of transcription factors (TFs) and the localisation of histone modifications in the human genome can be quantified by the chromatin immunoprecipitation assay coupled with next-generation sequencing (ChIP-seq). The resulting chromatin feature… read more here.
Keywords: human genome; preprint; chromatin feature; enhancer prediction ... See more keywords