Accession PRJCA001372
Title HCC Non-invasive Surveillance by Low-pass Whole Genome-wide Bisulfite Sequencing.
Relevance Medical
Data types Epigenomics
Raw sequence reads
Organisms Homo sapiens
Description Circulating cell-free DNA methylation has been demonstrated to be a promising strategy for non-invasive cancer diagnosis. However, low-level of cell-free DNA in plasma and high cost of whole genome bisulfite sequencing (WGBS) limits sequencing depth and subsequent biomarker identification of cell-free DNA in plasma. Here we demonstrate long-region hypo-methylation (LRM) in low-pass WGBS data (<5-million reads) provide high sensitivity and specificity surveillance to hepatocellular carcinoma (HCC). We applied low-pass WGBS approach and demonstrated DNA methylation abnormalities in HCC occurred in the HBV integration regions. These findings reflect the stage of liver disease progression thereby providing a suitable surrogate for methylation level estimation in plasma cfDNA analysis of liver diseases.
Sample scope Multiisolate
Release date 2020-04-10
Publication
PubMed ID Article title Journal name DOI Year
32741373 Hypomethylation in HBV integration regions aids non-invasive surveillance to hepatocellular carcinoma by low-pass genome-wide bisulfite sequencing BMC Medicine 10.1186/s12916-020-01667-x 2020
Grants
Agency program Grant ID Grant title
National Natural Science Foundation of China (NSFC) 81201700
Submitter Haikun  Hai  Zhang  (zhanghk@big.ac.cn)
Organization Beijing Institute of Genomics, Chinese Academy of Sciences
Submission date 2019-04-12

Project Data

Resource name Description
BioSample (60)  show -
GSA (1) -
CRA001537 HCC Non-invasive Surveillance by Low-pass Whole Genome-wide Bisulfite Sequencing.