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MicroRNA target site identification by integrating sequence and binding information

Official URL:https://doi.org/10.1038/nmeth.2489
PubMed:View item in PubMed
Creators Name:Majoros, W.H. and Lekprasert, P. and Mukherjee, N. and Skalsky, R.L. and Corcoran, D.L. and Cullen, B.R. and Ohler, U.
Journal Title:Nature Methods
Journal Abbreviation:Nat Methods
Volume:10
Number:7
Page Range:630-633
Date:July 2013
Keywords:Gene Regulatory Networks, Software, Data Integration, miRNAs
Abstract:High-throughput sequencing has opened numerous possibilities for the identification of regulatory RNA-binding events. Cross-linking and immunoprecipitation of Argonaute proteins can pinpoint a microRNA (miRNA) target site within tens of bases but leaves the identity of the miRNA unresolved. A flexible computational framework, microMUMMIE, integrates sequence with cross-linking features and reliably identifies the miRNA family involved in each binding event. It considerably outperforms sequence-only approaches and quantifies the prevalence of noncanonical binding modes.
ISSN:1548-7091
Publisher:Nature Publishing Group (U.S.A.)
Item Type:Article

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