828e8fde956c566c299dd09ccde15f217de365a3 lrnassar Wed Jan 7 16:54:30 2026 -0800 Final touches to the track, feedback from Zhiping. Reordering the registry tracks to be alphbetical by longLabel, but still keep data types together and updating the refences to the nature article that has now published. Refs #34109 diff --git src/hg/makeDb/trackDb/human/hg38/cCREsSuper.html src/hg/makeDb/trackDb/human/hg38/cCREsSuper.html index bbdd09b6d6b..06b29d749eb 100644 --- src/hg/makeDb/trackDb/human/hg38/cCREsSuper.html +++ src/hg/makeDb/trackDb/human/hg38/cCREsSuper.html @@ -18,15 +18,36 @@ H3K27ac (histone modifications), and ChIP-seq for CTCF. These data support detailed analysis of regulatory activity in individual biosamples.
  • ENCODE3 cCREs: This track provides the version of the cCRE Registry generated at the end of ENCODE3, using data available up to that phase. The methodology was refined and the dataset greatly expanded during ENCODE4. For instance, the Core Collection would have included only 25 biosamples under ENCODE3 criteria. While ENCODE3 tracks are preserved for reproducibility, ENCODE4 tracks are recommended for all current analyses, as they also incorporate ENCODE3 data.

    • Display conventions, data access, and credits

    For information on track configuration, data description, data access, methods, and data provenance, see the individual track description pages via their links above

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    References

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    +ENCODE Project Consortium, Moore JE, Purcaro MJ, Pratt HE, Epstein CB, Shoresh N, Adrian J, Kawli T, +Davis CA, Dobin A et al. + +Expanded encyclopaedias of DNA elements in the human and mouse genomes. +Nature. 2020 Jul;583(7818):699-710. +PMID: 32728249; PMC: PMC7410828 +

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    +Moore JE, Pratt HE, Fan K, Phalke N, Fisher J, Elhajjajy SI, Andrews G, Gao M, Shedd N, Fu Y et +al. + +An Expanded Registry of Candidate cis-Regulatory Elements for Studying Transcriptional +Regulation. +Nature. 2026 January 7. +PMID: 39763870; PMC: PMC11703161 +