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Blacklisted region

Definition
AI-generated

Blacklisted regions are high-artifact genomic intervals (often from ENCODE or custom tracks) excluded from analyses because alignments and variant calls are unreliable.

Topics
Sequencing Data Analysis
Related
Callable genome Centromere

Why it matters in GWAS

Blacklist masks prevent spurious association signals driven by sequencing and mapping artifacts near satellites and telomeric repeats.

Example usage

"Blacklisted region intervals from ENCODE were excluded from peak calling and variant summaries."

Callable genome Centromere
Related-term network

Click any node to open that term page.

Node order. The current term is first. Next come every page linked from Related terms, in the same top-to-bottom order as that list. Then new terms appear in two-hop layers: for each of those direct neighbors (in that same order), their related terms are appended if not already listed. A third pass does the same for two-hop nodes. The walk stops when a fixed maximum number of nodes is reached.

References

  • Amemiya HM, et al. (2022). The ENCODE blacklist. Nat Commun.
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