RT Journal Article
SR Electronic
T1 <em>Compartmap</em> enables inference of higher-order chromatin structure in individual cells from scRNA-seq and scATAC-seq
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2021.05.17.444465
DO 10.1101/2021.05.17.444465
A1 Benjamin K. Johnson
A1 Jean-Philippe Fortin
A1 Kasper D. Hansen
A1 Hui Shen
A1 Timothy Triche, Jr.
YR 2021
UL http://biorxiv.org/content/early/2021/05/18/2021.05.17.444465.abstract
AB Single-cell profiling of chromatin structure remains a challenge due to cost, throughput, and resolution. We introduce compartmap to reconstruct higher-order chromatin domains in individual cells from transcriptomic (RNAseq) and epigenomic (ATACseq) assays. In cell lines and primary human samples, compartmap infers higher-order chromatin structure comparable to specialized chromatin capture methods, and identifies clinically relevant structural alterations in single cells. This provides a common lens to integrate transcriptional and epigenomic results, linking higher-order chromatin architecture to gene regulation and to clinically relevant phenotypes in individual cells.Competing Interest StatementThe authors have declared no competing interest.