ERVcancer: a web resource designed for querying activation of human endogenous retroviruses across major cancer types

Abstract

AbstractHuman endogenous retroviruses (HERVs) compose approximately 8% of the human genome, co-opted into the dynamic regulatory network of cellular potency in early embryonic development. In recent studies, resurgent HERVs’ transcriptional activity has been frequently observed in many types of human cancers, suggesting their potential functions in the occurrence and progression of malignancy. However, a web resource dedicated to querying the relationship between activation of HERVs and cancer development is lacking. Here, we have constructed a database to explore the sequence information, expression profiles, survival prognosis, and genetic interactions of HERVs in diverse cancer types. Our database currently incorporates RNA sequencing (RNA-seq) data of 580 HERVs across 16246 samples, comprising 151 early embryonic data from the Gene Expression Omnibus (GEO) database, 8051 human adult tissues’ data from the Genotype-Tissue Expression (GTEx) project, 932 cancer cell lines’ data from the Cancer Cell Line Encyclopedia (CCLE) project, 6478 tumoral and 634 normal tissue samples’ data from The Cancer Genome Atlas (TCGA) project. The primary goal is to provide an easily accessible and user-friendly database for professionals in the fields of bioinformatics, pathology, pharmacology, and related areas, enabling them to efficiently screen the activity of HERVs of interest in normal and cancerous tissues and evaluate the clinical relevance. The ERVcancer database is available athttp://kyuanlab.com/ervcancer/.