Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2005-11

AUTHORS

Stefan Washietl, Ivo L Hofacker, Melanie Lukasser, Alexander Hüttenhofer, Peter F Stadler

ABSTRACT

In contrast to the fairly reliable and complete annotation of the protein coding genes in the human genome, comparable information is lacking for noncoding RNAs (ncRNAs). We present a comparative screen of vertebrate genomes for structural noncoding RNAs, which evaluates conserved genomic DNA sequences for signatures of structural conservation of base-pairing patterns and exceptional thermodynamic stability. We predict more than 30,000 structured RNA elements in the human genome, almost 1,000 of which are conserved across all vertebrates. Roughly a third are found in introns of known genes, a sixth are potential regulatory elements in untranslated regions of protein-coding mRNAs and about half are located far away from any known gene. Only a small fraction of these sequences has been described previously. A comparison with recent tiling array data shows that more than 40% of the predicted structured RNAs overlap with experimentally detected sites of transcription. The widespread conservation of secondary structure points to a large number of functional ncRNAs and cis-acting mRNA structures in the human genome. More... »

PAGES

1383-1390

References to SciGraph publications

Identifiers

URI

http://scigraph.springernature.com/pub.10.1038/nbt1144

DOI

http://dx.doi.org/10.1038/nbt1144

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1028917438

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/16273071


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