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rdf:type |
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lifeskim:mentions |
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pubmed:issue |
9
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pubmed:dateCreated |
2009-1-22
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pubmed:abstractText |
Target prediction for animal microRNAs (miRNAs) has been hindered by the small number of verified targets available to evaluate the accuracy of predicted miRNA-target interactions. Recently, a dataset of 3,404 miRNA-associated mRNA transcripts was identified by immunoprecipitation of the RNA-induced silencing complex components AIN-1 and AIN-2. Our analysis of this AIN-IP dataset revealed enrichment for defining characteristics of functional miRNA-target interactions, including structural accessibility of target sequences, total free energy of miRNA-target hybridization and topology of base-pairing to the 5' seed region of the miRNA. We used these enriched characteristics as the basis for a quantitative miRNA target prediction method, miRNA targets by weighting immunoprecipitation-enriched parameters (mirWIP), which optimizes sensitivity to verified miRNA-target interactions and specificity to the AIN-IP dataset. MirWIP can be used to capture all known conserved miRNA-mRNA target relationships in Caenorhabditis elegans at a lower false-positive rate than can the current standard methods.
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pubmed:grant |
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pubmed:commentsCorrections |
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-14624247,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-14685240,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-14709173,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-15372042,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-15383676,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-15610845,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-15685193,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-15723116,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-15737928,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-15738385,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-15766527,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-15951802,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-16043502,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-16122423,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-16458514,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-16495412,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-16736023,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-16921378,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-16990141,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-17011485,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-17065234,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-17174894,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-17200520,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-17401373,
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http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-17612493,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-17637574,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-17893677,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-18042455,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-18048652,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-18085825,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19160516-8252621
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pubmed:language |
eng
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pubmed:journal |
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pubmed:citationSubset |
IM
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pubmed:chemical |
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pubmed:status |
MEDLINE
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pubmed:month |
Sep
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pubmed:issn |
1548-7091
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pubmed:author |
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pubmed:issnType |
Print
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pubmed:volume |
5
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pubmed:owner |
NLM
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pubmed:authorsComplete |
Y
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pubmed:pagination |
813-9
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pubmed:dateRevised |
2011-7-28
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pubmed:meshHeading |
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pubmed:year |
2008
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pubmed:articleTitle |
mirWIP: microRNA target prediction based on microRNA-containing ribonucleoprotein-enriched transcripts.
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pubmed:affiliation |
Program in Molecular Medicine, University of Massachusetts Medical School, 373 Plantation Street, Suite 306, Worcester, Massachusetts 01605, USA.
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pubmed:publicationType |
Journal Article,
Research Support, U.S. Gov't, Non-P.H.S.,
Research Support, Non-U.S. Gov't,
Research Support, N.I.H., Extramural
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