Im very new to Hi-C and Im not quite sure how to approach these data, as they look a bit stranger than Im used to from e.g. ChIA-PET data. In ChIA-PET data you get the regions that are interacting, but all the Hi-C data I have seen so far is presented like this (after raw sequencing data have been processed by e.g. HiC-pro):
HWI-D00119:283:HVWGBCXX:2:2113:7308:28159 chr1 10032 - chr13 47215551 - HWI-D00119:284:HVWGBCXX:2:2205:16386:19423 chr1 10035 - chr7 13791889 -
As I understand this data position 10032 at chr1 interacts with 47215551 at chr13, but shouldnt it be regions instead for interaction start and interaction end instead of a specific position?
chr1 10032 10050 chr13 47215551 47215600
Is the position from the Hi-C where the biotin-labeled nucleotide is found on each restriction fragment?
Is there any way to convert these data into bed files displaying these interactions? What I very much would like to do with these data is to see whether my list of CpGs in one interacting end is forming interaction with a gene in the other end.
Thanks in advance!