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The ENCODE Blacklist: Identification of Problematic Regions of the Genome

Overview
Journal Sci Rep
Specialty Science
Date 2019 Jun 29
PMID 31249361
Citations 741
Authors
Haley M Amemiya
Anshul Kundaje
Alan P Boyle
Affiliations
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Abstract

Functional genomics assays based on high-throughput sequencing greatly expand our ability to understand the genome. Here, we define the ENCODE blacklist- a comprehensive set of regions in the human, mouse, worm, and fly genomes that have anomalous, unstructured, or high signal in next-generation sequencing experiments independent of cell line or experiment. The removal of the ENCODE blacklist is an essential quality measure when analyzing functional genomics data.

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