LNCipedia 5: towards a reference set of human long non-coding RNAs

By Pieter-Jan Volders, J. Anckaert, K. Verheggen, J. Nuytens, Lennart Martens, Pieter Mestdagh, Jo Vandesompele. Nucleic Acids Res., 2018

460 citations recorded by the source corpus.

Abstract While long non-coding RNA (lncRNA) research in the past has primarily focused on the discovery of novel genes, today it has shifted towards functional annotation of this large class of genes. With thousands of lncRNA studies published every year, the current challenge lies in keeping track of which lncRNAs are functionally described. This is further complicated by the fact that lncRNA nomenclature is not straightforward and lncRNA annotation is scattered across different resources with their own quality metrics and definition of a lncRNA. To overcome this issue, large scale curation and annotation is needed. Here, we present the fifth release of the human lncRNA database LNCipedia (https://lncipedia.org). The most notable improvements include manual literature curation of 2482 lncRNA articles and the use of official gene symbols when available. In addition, an improved filtering pipeline results in a higher quality reference lncRNA gene set.

Subfields: Cancer Research, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/c22f8f9c6fa304ad7d9b6c3a67fbc62abc65b68d

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Citations in the corpus

The ProteomeXchange consortium at 10 years: 2023 update (2022, unknown): “LNCipedia (40) (for longnon-coding RNAs), sORF.”
The ProteomeXchange consortium in 2020: enabling ‘big data’ approaches in proteomics (2019, background): “Figure 1 highlights some of those resources, including: (i) Protein knowledge bases (UniProt (19) and neXtProt (33)), to support information about each protein’s experimental evidence; (ii) Genome browsers (Ensembl (20) and UCSC Genome Browser (34)), where it is possible to integrate proteomics and ”
RNAcentral 2021: secondary structure integration, improved sequence search and new member databases (2020, background): “2), significant efforts have been made to expand the functional annotation of lncRNAs in the database (44).”