(1) Probe_ID: Probe ID
(2) Knowledgebase: Knowledgebase label:
Human (hg38)
- ProbeType: Infinium-I or -II
- ChromHMM: Generated using 833 ENCODE chromHMM calls from ENCODE ver.2, PMID: 22955616
- REMCChromHMM: ChromHMM consensus with at least 607 samples
- Blacklist: Based on ENCFF356LFX (2020-05-05), PMID: 31249361
- CTCFbind: CTCF binding sites Wang et al. 2012 Genome Research, PMID 22955990
- ImprintingDMR: Imprinting DMRs based on Court et al. 2014 Genome Research, PMID 24402520
- rmsk1: RepeatMasker Lv1
- rmsk2: RepeatMasker Lv1
- CGI: CpG island shores (up to 2kb between CpG islands), CpG island shelves (regions 2 to 4kb between CpG islands) and open seas (rest of the genome)
- H3K9me3HighConfidence: Based on CpGs having H3K9me3 marks
- Tetranuc2: Tertranucleotide context of all CpGs based on tetranucleotide: SCGS,WCGW,SCGW, N (unknown bases) are excluded
- ...
Mouse (mm10)
- ProbeType: Infinium-I or -II
- ChromHMM: Generated using 66 ENCODE chromHMM calls from van der Velde et al., 2021
- REMCChromHMM: ChromHMM consensus with at least 607 samples
- Blacklist: Based on ENCODE ENCSR636HFF (2016-10-16)
- rmsk1: RepeatMasker Lv1
- rmsk2: RepeatMasker Lv1
- CGI: CpG island shores (up to 2kb between CpG islands), CpG island shelves (regions 2 to 4kb between CpG islands) and open seas (rest of the genome)
- Tetranuc2: Tertranucleotide context of all CpGs based on tetranucleotide: SCGS,WCGW,SCGW, N (unknown bases) are excluded
- ...