PuSH - Publikationsserver des Helmholtz Zentrums München

Export: TXT Text RIS Endnote (RIS) BIB BibTeX
Ellwanger, D.C. ; Büttner, F.A. ; Mewes, H.-W. ; Stuempflen, V.

The sufficient minimal set of miRNA seed types.

Bioinformatics 27, 1346-1350 (2011)
Verlagsversion Volltext DOI PMC
Open Access Gold
MOTIVATION: Pairing between the target sequence and the 6-8 nt long seed sequence of the miRNA presents the most important feature for miRNA target site prediction. Novel high-throughput technologies such as Argonaute HITS-CLIP afford meanwhile a detailed study of miRNA:mRNA duplices. These interaction maps enable a first discrimination between functional and non-functional target sites in a bulky fashion. Prediction algorithms apply different seed paradigms to identify miRNA target sites. Therefore, a quantitative assessment of miRNA target site prediction is of major interest. RESULTS: We identified a set of canonical seed types based on a transcriptome wide analysis of experimentally verified functional target sites. We confirmed the specificity of long seeds but we found that the majority of functional target sites are formed by less specific seeds of only 6 nt indicating a crucial role of this type. A substantial fraction of genuine target sites arenon-conserved. Moreover, the majority of functional sites remain uncovered by common prediction methods.
Impact Factor
Scopus SNIP
Web of Science
Times Cited
Scopus
Cited By
Altmetric
4.877
1.912
86
90
Tags
Anmerkungen
Besondere Publikation
Auf Hompepage verbergern

Zusatzinfos bearbeiten
Eigene Tags bearbeiten
Privat
Eigene Anmerkung bearbeiten
Privat
Auf Publikationslisten für
Homepage nicht anzeigen
Als besondere Publikation
markieren
Publikationstyp Artikel: Journalartikel
Dokumenttyp Wissenschaftlicher Artikel
Schlagwörter mammalian micrornas; site accessibility; target recognition; messenger-rnas; prediction; protein; impact; identification; determinants; expression
Sprache englisch
Veröffentlichungsjahr 2011
HGF-Berichtsjahr 2011
e-ISSN 1367-4811
Zeitschrift Bioinformatics
Quellenangaben Band: 27, Heft: 10, Seiten: 1346-1350 Artikelnummer: , Supplement: ,
Verlag Oxford University Press
Verlagsort Oxford
Begutachtungsstatus Peer reviewed
Institut(e) Institute of Bioinformatics and Systems Biology (IBIS)
POF Topic(s) 30505 - New Technologies for Biomedical Discoveries
Forschungsfeld(er) Enabling and Novel Technologies
PSP-Element(e) G-503700-001
PubMed ID 21441577
DOI 10.1093/bioinformatics/btr149
WOS ID WOS:000290334500002
Scopus ID 79955768521
Erfassungsdatum 2011-11-14
[➜Korrektur melden]