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

IF 6.6 2区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY

Journal of Genetics and Genomics Pub Date : 2024-09-10 DOI:10.1016/j.jgg.2024.09.004

Xiaoyun Lei, Song Mao, Yinshuang Li, Shi Huang, Jinchen Li, Wei Du, Chunmei Kuang, Kai Yuan

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引用次数: 0

Abstract

Human endogenous retroviruses (HERVs) comprise 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 dedicated web resource for 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 contains RNA sequencing data of 580 HERVs across 16,246 samples, including that of 6478 tumoral and 634 normal tissues, 932 cancer cell lines, as well as 151 early embryonic and 8051 human adult tissues. 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 at .

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ERVcancer：用于查询主要癌症类型中人类内源性逆转录病毒激活情况的网络资源

人类内源性逆转录病毒（HERVs）约占人类基因组的 8%，在早期胚胎发育过程中就被纳入了细胞效力的动态调控网络。最近的研究发现，在多种类型的人类癌症中经常可以观察到 HERVs 的转录活性，这表明它们在恶性肿瘤的发生和发展过程中具有潜在的功能。然而，目前还缺乏一个专门的网络资源来查询 HERVs 的激活与癌症发展之间的关系。在此，我们构建了一个数据库，用于探索不同癌症类型中 HERVs 的序列信息、表达谱、生存预后和遗传相互作用。我们的数据库目前包含 16246 个样本中 580 个 HERVs 的 RNA 测序数据，其中包括 6478 个肿瘤组织和 634 个正常组织、932 个癌症细胞系以及 151 个早期胚胎组织和 8051 个人类成人组织。其主要目的是为生物信息学、病理学、药理学及相关领域的专业人士提供一个易于访问和使用的数据库，使他们能够有效地筛选正常组织和癌症组织中感兴趣的 HERVs 的活性，并评估其临床相关性。ERVcancer 数据库的网址为。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Journal of Genetics and Genomics 生物-生化与分子生物学

CiteScore

8.20

自引率

3.40%

发文量

4756

审稿时长

14 days

期刊介绍： The Journal of Genetics and Genomics (JGG, formerly known as Acta Genetica Sinica ) is an international journal publishing peer-reviewed articles of novel and significant discoveries in the fields of genetics and genomics. Topics of particular interest include but are not limited to molecular genetics, developmental genetics, cytogenetics, epigenetics, medical genetics, population and evolutionary genetics, genomics and functional genomics as well as bioinformatics and computational biology.