Dataset Information

LnCeVar: a comprehensive database of genomic variations that disturb ceRNA network regulation.

ABSTRACT: LnCeVar (http://www.bio-bigdata.net/LnCeVar/) is a comprehensive database that aims to provide genomic variations that disturb lncRNA-associated competing endogenous RNA (ceRNA) network regulation curated from the published literature and high-throughput data sets. LnCeVar curated 119 501 variation-ceRNA events from thousands of samples and cell lines, including: (i) more than 2000 experimentally supported circulating, drug-resistant and prognosis-related lncRNA biomarkers; (ii) 11 418 somatic mutation-ceRNA events from TCGA and COSMIC; (iii) 112 674 CNV-ceRNA events from TCGA; (iv) 67 066 SNP-ceRNA events from the 1000 Genomes Project. LnCeVar provides a user-friendly searching and browsing interface. In addition, as an important supplement of the database, several flexible tools have been developed to aid retrieval and analysis of the data. The LnCeVar-BLAST interface is a convenient way for users to search ceRNAs by interesting sequences. LnCeVar-Function is a tool for performing functional enrichment analysis. LnCeVar-Hallmark identifies dysregulated cancer hallmarks of variation-ceRNA events. LnCeVar-Survival performs COX regression analyses and produces survival curves for variation-ceRNA events. LnCeVar-Network identifies and creates a visualization of dysregulated variation-ceRNA networks. Collectively, LnCeVar will serve as an important resource for investigating the functions and mechanisms of personalized genomic variations that disturb ceRNA network regulation in human diseases.

SUBMITTER: Wang P

PROVIDER: S-EPMC7145649 | biostudies-literature | 2020 Jan

REPOSITORIES: biostudies-literature

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LnCeVar: a comprehensive database of genomic variations that disturb ceRNA network regulation.

Wang Peng P Li Xin X Gao Yue Y Guo Qiuyan Q Ning Shangwei S Zhang Yunpeng Y Shang Shipeng S Wang Junwei J Wang Yanxia Y Zhi Hui H Fang Ying Y Shen Weitao W Zhang Guangmei G Chen Steven Xi SX Li Xia X

Nucleic acids research 20200101 D1

LnCeVar (http://www.bio-bigdata.net/LnCeVar/) is a comprehensive database that aims to provide genomic variations that disturb lncRNA-associated competing endogenous RNA (ceRNA) network regulation curated from the published literature and high-throughput data sets. LnCeVar curated 119 501 variation-ceRNA events from thousands of samples and cell lines, including: (i) more than 2000 experimentally supported circulating, drug-resistant and prognosis-related lncRNA biomarkers; (ii) 11 418 somatic m ...[more]

PMID: 31617563

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Dataset Information

LnCeVar: a comprehensive database of genomic variations that disturb ceRNA network regulation.

Publications

LnCeVar: a comprehensive database of genomic variations that disturb ceRNA network regulation.

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