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项目编号 PRJCA018404
项目标题 DNA methylation profiling to determine the primary sites of metastatic cancers using formalin-fixed paraffin-embedded tissues
涉及领域 Medical
数据类型 Epigenomics
物种名称 Homo sapiens
描述信息 Identifying the primary site of metastatic cancer is critical to guiding the subsequent treatment. Approximately 3-9% of metastatic patients are diagnosed with cancer of unknown primary sites (CUP) even after a comprehensive diagnostic workup. However, a widely accepted molecular test is still not available. Here, we report a new method that applies formalin-fixed, paraffin-embedded tissues to construct reduced representation bisulfite sequencing libraries (FFPE-RRBS). We then generate and systematically evaluate 28 molecular classifiers, built on four DNA methylation scoring methods and seven machine learning approaches, using the RRBS library dataset of 498 fresh-frozen tumor tissues from primary cancer patients. Among these classifiers, the beta value-based linear support vector (BELIVE) performs the best, achieving overall accuracies of 81-93% for identifying the primary sites in 215 metastatic patients using top-k predictions (k=1, 2, 3). Coincidentally, BELIVE also successfully predicts the tissue of origin in 81-93% of CUP patients (n=68).
样品范围 Multiisolate
发布日期 2023-07-16
出版信息
PubMed ID 文章标题 杂志名称 Doi 发表年份
37709764 DNA methylation profiling to determine the primary sites of metastatic cancers using formalin-fixed paraffin-embedded tissues Nature Communications 10.1038/s41467-023-41015-0 2023
项目资金来源
机构 项目类型 授权项目ID 授权项目名称
National Natural Science Foundation of China (NSFC) 32270691
Zhejiang Province and National Health Commission of China WKJ-ZJ-2331
National Natural Science Foundation of China 82072950
Major Project of Hangzhou Science and Technology Bureau 20180417A01
本项目在其他数据库系统中的项目序列号
项目序列号 数据库名称
PRJNA970357 NCBI
提交者 Jiantao Shi (jtshi@sibcb.ac.cn)
提交单位 Shanghai Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences
提交日期 2023-07-16

项目包含数据信息

资源名称 描述
BioSample (791)  show -