lncRNAKB, a knowledgebase of tissue-specific functional annotation and trait association of long noncoding RNA

Author:

Seifuddin FayazORCID,Singh Komudi,Suresh Abhilash,Judy Jennifer T.,Chen Yun-Ching,Chaitankar Vijender,Tunc Ilker,Ruan Xiangbo,Li Ping,Chen Yi,Cao Haiming,Lee Richard S.,Goes Fernando S.ORCID,Zandi Peter P.ORCID,Jafri M. SaleetORCID,Pirooznia MehdiORCID

Abstract

AbstractLong non-coding RNA Knowledgebase (lncRNAKB) is an integrated resource for exploring lncRNA biology in the context of tissue-specificity and disease association. A systematic integration of annotations from six independent databases resulted in 77,199 human lncRNA (224,286 transcripts). The user-friendly knowledgebase covers a comprehensive breadth and depth of lncRNA annotation. lncRNAKB is a compendium of expression patterns, derived from analysis of RNA-seq data in thousands of samples across 31 solid human normal tissues (GTEx). Thousands of co-expression modules identified via network analysis and pathway enrichment to delineate lncRNA function are also accessible. Millions of expression quantitative trait loci (cis-eQTL) computed using whole genome sequence genotype data (GTEx) can be downloaded at lncRNAKB that also includes tissue-specificity, phylogenetic conservation and coding potential scores. Tissue-specific lncRNA-trait associations encompassing 323 GWAS (UK Biobank) are also provided. LncRNAKB is accessible at http://www.lncrnakb.org/, and the data are freely available through Open Science Framework (10.17605/OSF.IO/RU4D2).

Funder

U.S. Department of Health & Human Services | NIH | National Heart, Lung, and Blood Institute

Publisher

Springer Science and Business Media LLC

Subject

Library and Information Sciences,Statistics, Probability and Uncertainty,Computer Science Applications,Education,Information Systems,Statistics and Probability

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