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lncRNAdb v2.0: expanding the reference database for functional long noncoding RNAs.

Quek XC, Thomson DW, Maag JL, Bartonicek N, Signal B, Clark MB, Gloss BS, Dinger ME - Nucleic Acids Res. (2014)

Bottom Line: Despite the prevalence of long noncoding RNA (lncRNA) genes in eukaryotic genomes, only a small proportion have been examined for biological function. lncRNAdb, available at http://lncrnadb.org, provides users with a comprehensive, manually curated reference database of 287 eukaryotic lncRNAs that have been described independently in the scientific literature.In addition to capturing a great proportion of the recent literature describing functions for individual lncRNAs, lncRNAdb now offers an improved user interface enabling greater accessibility to sequence information, expression data and the literature.The new features in lncRNAdb include the integration of Illumina Body Atlas expression profiles, nucleotide sequence information, a BLAST search tool and easy export of content via direct download or a REST API. lncRNAdb is now endorsed by RNAcentral and is in compliance with the International Nucleotide Sequence Database Collaboration.

View Article: PubMed Central - PubMed

Affiliation: Garvan Institute of Medical Research, 384 Victoria Street, Sydney, NSW 2010, Australia St Vincent's Clinical School, University of New South Wales, Sydney, NSW 2052, Australia.

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Related in: MedlinePlus

Coverage of the literature by lncRNAdb v2.0. Cumulative totals of all publications matching the search term ‘long noncoding RNA’ [MeSH] were extracted from PubMed from 1992–2013 (green) and the proportion incorporated into lncRNAdb as ascribing functional annotation to lncRNAs is shown (blue). Cumulative totals of the number of lncRNAs found in lncRNAdb described in literature (red).
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Figure 1: Coverage of the literature by lncRNAdb v2.0. Cumulative totals of all publications matching the search term ‘long noncoding RNA’ [MeSH] were extracted from PubMed from 1992–2013 (green) and the proportion incorporated into lncRNAdb as ascribing functional annotation to lncRNAs is shown (blue). Cumulative totals of the number of lncRNAs found in lncRNAdb described in literature (red).

Mentions: We have added a total of 87 new entries to the database, and existing entries have been updated to reflect recent literature. These changes are based on information derived via manual curation from 382 new publications. In total lncRNAdb now holds 283 entries, informed by 921 references and 260 nucleotide sequences (Figure1). These cover entries across 71 different organisms.


lncRNAdb v2.0: expanding the reference database for functional long noncoding RNAs.

Quek XC, Thomson DW, Maag JL, Bartonicek N, Signal B, Clark MB, Gloss BS, Dinger ME - Nucleic Acids Res. (2014)

Coverage of the literature by lncRNAdb v2.0. Cumulative totals of all publications matching the search term ‘long noncoding RNA’ [MeSH] were extracted from PubMed from 1992–2013 (green) and the proportion incorporated into lncRNAdb as ascribing functional annotation to lncRNAs is shown (blue). Cumulative totals of the number of lncRNAs found in lncRNAdb described in literature (red).
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4384040&req=5

Figure 1: Coverage of the literature by lncRNAdb v2.0. Cumulative totals of all publications matching the search term ‘long noncoding RNA’ [MeSH] were extracted from PubMed from 1992–2013 (green) and the proportion incorporated into lncRNAdb as ascribing functional annotation to lncRNAs is shown (blue). Cumulative totals of the number of lncRNAs found in lncRNAdb described in literature (red).
Mentions: We have added a total of 87 new entries to the database, and existing entries have been updated to reflect recent literature. These changes are based on information derived via manual curation from 382 new publications. In total lncRNAdb now holds 283 entries, informed by 921 references and 260 nucleotide sequences (Figure1). These cover entries across 71 different organisms.

Bottom Line: Despite the prevalence of long noncoding RNA (lncRNA) genes in eukaryotic genomes, only a small proportion have been examined for biological function. lncRNAdb, available at http://lncrnadb.org, provides users with a comprehensive, manually curated reference database of 287 eukaryotic lncRNAs that have been described independently in the scientific literature.In addition to capturing a great proportion of the recent literature describing functions for individual lncRNAs, lncRNAdb now offers an improved user interface enabling greater accessibility to sequence information, expression data and the literature.The new features in lncRNAdb include the integration of Illumina Body Atlas expression profiles, nucleotide sequence information, a BLAST search tool and easy export of content via direct download or a REST API. lncRNAdb is now endorsed by RNAcentral and is in compliance with the International Nucleotide Sequence Database Collaboration.

View Article: PubMed Central - PubMed

Affiliation: Garvan Institute of Medical Research, 384 Victoria Street, Sydney, NSW 2010, Australia St Vincent's Clinical School, University of New South Wales, Sydney, NSW 2052, Australia.

Show MeSH
Related in: MedlinePlus