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.
Keywords
BlacklistENCODEGenomeGenomicsComputational biologyIdentification (biology)BiologyDNA sequencingHuman genomeFunctional genomicsGeneticsComputer scienceGeneWorld Wide Web
MeSH Terms
AnimalsComputational BiologyDatabasesGeneticGenomeGenomicsHumansSequence AnalysisDNASoftware
Affiliated Institutions
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Publication Info
- Year
- 2019
- Type
- article
- Volume
- 9
- Issue
- 1
- Pages
- 9354-9354
- Citations
- 1883
- Access
- Closed
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Cite This
Haley M. Amemiya,
Anshul Kundaje,
Alan P. Boyle
(2019).
The ENCODE Blacklist: Identification of Problematic Regions of the Genome.
Scientific Reports
, 9
(1)
, 9354-9354.
https://doi.org/10.1038/s41598-019-45839-z
Identifiers
- DOI
- 10.1038/s41598-019-45839-z
- PMID
- 31249361
- PMCID
- PMC6597582