RT Journal Article
SR Electronic
T1 Biop-C: A Method for Chromatin Interactome Analysis of Solid Cancer Needle Biopsy Samples
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2021.01.11.426176
DO 10.1101/2021.01.11.426176
A1 Sambhavi Animesh
A1 Ruchi Choudhary
A1 Xin Yi Ng
A1 Joshua Kai Xun Tay
A1 Wan-Qin Chong
A1 Boon Cher Goh
A1 Melissa Jane Fullwood
YR 2021
UL http://biorxiv.org/content/early/2021/01/11/2021.01.11.426176.abstract
AB A major challenge in understanding the 3D genome organization of cancer samples is the lack of a method adapted to solid cancer needle biopsy samples. Here we developed Biop-C, a modified in situ Hi-C method, and applied it to characterize three nasopharyngeal cancer patient samples. We identified Topologically-Associated Domains (TADs), chromatin interaction loops, and Frequently Interacting regions (FIREs) at key oncogenes in nasopharyngeal cancer from Biop-C heat maps. Our results demonstrate the utility of our Biop-C method in investigating the 3D genome organization in solid cancers, and the importance of 3D genome organization in regulating oncogenes in nasopharyngeal cancer.Competing Interest StatementM.J.F declares two patents on methodologies related to ChIA‐PET. No other conflicts of interest are declared.