Adding/updating additional annotation data

[svenbioinf]

Hi AnnotationHub Team,

thank you for providing such easy access to all of this annotation data! I cant seem to find some actually basic annotations:

(CpG islands) while browsing AnnotationHub I noticed the GRanges annotation for CpG islands is listed for hg19 but not for hg38. see:

ah->AnnotationHub() q=query(ah, c("GRanges","Homo sapiens", "CpG")) mcols(q)

(Promoters) Also the Ensembl regulatory build seems to be missing. (https://www.ensembl.org/info/genome/funcgen/regulatory_build.html)

(TFBS) Now while we are at it there is a very good annotation of TFBS from JASPAR which I could not find: http://expdata.cmmt.ubc.ca/JASPAR/downloads/UCSC_tracks/2022/

Am I looking at the wrong place? If not- who should be addressed to add those tracks? (Also offering my help if needed)

Best, Sven

[lshep]

I apologize for the delayed response. We would love to have updated information in AnnotationHub but we rely mostly on user contributed resources. We would gladly accept contributions if someone will provide them. I would suggest re-posting this on the support site https://support.bioconductor.org/ as I believe there might be ways with rtracklayer or other Bioconductor packages to get this information but the community might be helpful. Also of note the JASPAR2022 package is currently in review for submission to Bioconductor and should be accepted over the next few weeks.
Cheers