article Open AccessTop 1% cited
The ENCODE Blacklist: Identification of Problematic Regions of the Genome
Scientific Reports · 2019 · Vol. 9(1) · pp. 9354–9354
Haley M. Amemiya(University of Michigan)Anshul Kundaje✉(Stanford Medicine)Alan P. Boyle(University of Michigan)
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.
Single-cell and spatial transcriptomicsGenomics and Phylogenetic StudiesGene expression and cancer classificationBlacklistENCODEGenomeGenomicsComputational biologyIdentification (biology)BiologyDNA sequencingHuman genomeFunctional genomics
MeSH terms
AnimalsHumansSoftwareGenomeSequence Analysis, DNAComputational BiologyGenomicsDatabases, Genetic
Funding
- National Institutes of Health
- National Human Genome Research Institute
- National Institute of General Medical Sciences
Citations
1,991
FWCI
61.16
field-weighted impact
References
10
Percentile
100%
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Citations per year
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References
The Sequence Alignment/Map format and SAMtools
Bioinformatics · 2009 · 66,208 citations
An integrated encyclopedia of DNA elements in the human genome
Nature · 2012 · 19,173 citations
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The ENCODE Blacklist: Identification of Problematic Regions of the Genome
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