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bioRxiv · 10.1101/669994

lncRNAKB: A comprehensive knowledgebase of long non-coding RNAs

Seifuddin, F.·Singh, K.·Suresh, A.·Chen, Y.-C.·Chaitankar, V.·Tunc, I.·Ruan, X.·Li, P.·Chen, Y.·Cao, H.·Lee, R. S.·Goes, F. S.·Zandi, P. P.·Jafri, M. S.·Pirooznia, M.
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Abstract

We have assembled a comprehensive long non-coding RNA knowledgebase (lncRNAKB) of 77,199 annotated human lncRNAs (224,286 transcripts) by methodically integrating widely used lncRNAs resources. To facilitate functional characterization of lncRNAs, we employed Genotype-Tissue Expression (GTEx) project to provide tissue-specific gene expression profiles of lncRNAs in 31 solid organ tissues. Additional information includes network analysis to identify co-expressed gene modules to potentially delineate lncRNA function. Tissue-specificity, phylogenetic conservation scores and coding potential for lncRNAs are included. Finally, using whole genome sequencing data from GTEx, expression quantitative trait loci (cis-eQTL) regulated lncRNAs were calculated in all tissues. lncRNAKB is available at http://www.lncrnakb.org.

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Seifuddin, F., Singh, K., Suresh, A., Chen, Y.-C., Chaitankar, V., Tunc, I., Ruan, X., Li, P., Chen, Y., Cao, H., Lee, R. S., Goes, F. S., Zandi, P. P., Jafri, M. S., Pirooznia, M.. 2019-06-13. lncRNAKB: A comprehensive knowledgebase of long non-coding RNAs. https://doi.org/10.1101/669994

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