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In humans, more than 80% of the genome gets transcribed. However, only around 2% of the genome codes for proteins. The remaining part produces non-coding RNAs which includes ribosomal RNAs, transfer RNAs, telomerase RNAs, and regulatory RNAs, among other types. A large number of regulatory non-coding RNAs have been classified into two groups depending upon their length – small non-coding RNAs, such as microRNA, which are less than 200 nucleotides in length, and long non-coding RNA...
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lncRNAdb v2.0: expanding the reference database for functional long noncoding RNAs.

Xiu Cheng Quek1, Daniel W Thomson2, Jesper L V Maag1

  • 1Garvan 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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|October 22, 2014
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Summary
This summary is machine-generated.

The lncRNAdb database now offers enhanced features for exploring long noncoding RNA (lncRNA) functions. This manually curated resource provides improved access to sequence, expression, and literature data for 287 eukaryotic lncRNAs.

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Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Long noncoding RNAs (lncRNAs) are abundant in eukaryotic genomes, but their functions remain largely uncharacterized.
  • A significant gap exists in accessible, curated resources for studying lncRNA biology.

Purpose of the Study:

  • To present an updated lncRNAdb database with enhanced features for exploring eukaryotic lncRNAs.
  • To improve accessibility to lncRNA sequence, expression, and literature data.

Main Methods:

  • Manual curation of scientific literature to identify and describe functional lncRNAs.
  • Integration of new data types including Illumina Body Atlas expression profiles.
  • Development of an improved user interface with a BLAST search tool and data export options (direct download, REST API).

Main Results:

  • The lncRNAdb database now contains 287 manually curated eukaryotic lncRNAs.
  • Enhanced user interface provides greater accessibility to sequence, expression, and literature information.
  • New features facilitate data retrieval and analysis for researchers.

Conclusions:

  • lncRNAdb serves as a comprehensive, manually curated reference for functional lncRNAs.
  • The database's new features enhance its utility for the research community.
  • Endorsement by RNAcentral and compliance with INSDC underscore its reliability and integration into the broader biological data landscape.