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Candidate cis-Regulatory Element (cCRE)

Definition
AI-generated

A candidate cis-regulatory element (cCRE) is a genomic interval in the ENCODE Registry of candidate cis-Regulatory Elements: a catalog that integrates DNase-seq, histone modifications, CTCF binding, and related assays to nominate regulatory DNA with standardized labels (e.g. promoter-like, enhancer-like, CTCF-only).

Topics
Core genetics
Synonyms
cCRE
Plural
candidate cis-regulatory elements; cCREs
Related
Assay for Transposase-Accessible Chromatin (ATAC-seq) Chromatin Chromatin Accessibility Quantitative Trait Locus (caQTL)

Why it matters in GWAS

Overlap of fine-mapped variants with cCRE classes is a common first-pass annotation for noncoding hits; tissue-matched cCRE sets reduce false linkage compared with generic “open chromatin” peaks alone.

Example usage

"The sentinel SNP overlapped a lymphoblastoid enhancer-like cCRE in the ENCODE v4 registry."

Assay for Transposase-Accessible Chromatin (ATAC-seq) Chromatin Chromatin Accessibility Quantitative Trait Locus (caQTL) Cis-Regulatory Element (CRE) Encyclopedia of DNA Elements (ENCODE) Enhancer Noncoding Variant Promoter Roadmap Epigenomics Consortium
Related-term network

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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

  • ENCODE Project Consortium. (2012). An integrated encyclopedia of DNA elements in the human genome. Nature.
  • Moore JE, et al. (2020). Expanded encyclopaedias of DNA elements in the human and mouse genomes. Nature.
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