CTCF binding sites

Question

[pt.taklifi]

I am trying to get CTCF binding site across the genome and am looking to get high confidence regions, (not predicted regions). I have downloaded GENCODE GTF file but the field type does not include "CTCF-binding" or anything else similar. I am wondering if there is ready to use file with chromosome and coordinate of start and end sites and strand information on CTCF binding sites across genome. I appreciate your help and thoughts.

Answer 1

[GenoMax]

Looks like there is a bioconductor package: https://dozmorovlab.github.io/CTCF/

You can also find BED format files here --> https://screen.wenglab.org/downloads

Lots of CTCF tracks available in UCSC Browser. Use track search.

[pt.taklifi]

Thanks a lot GenoMax, for helpful resource and recommendations!