MicroRNA target site identification by integrating sequence and binding information


Journal Article

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.

Full Text

Duke Authors

Cited Authors

  • Majoros, WH; Lekprasert, P; Mukherjee, N; Skalsky, RL; Corcoran, DL; Cullen, BR; Ohler, U

Published Date

  • May 26, 2013

Published In

Electronic International Standard Serial Number (EISSN)

  • 1548-7105

International Standard Serial Number (ISSN)

  • 1548-7091

Digital Object Identifier (DOI)

  • 10.138/nmeth.2489

Citation Source

  • Scopus