A guide through present computational approaches for the identification of mammalian microRNA targets

by: Praveen Sethupathy, Molly Megraw, Artemis G Hatzigeorgiou

Nature Methods, Vol. 3, No. 11. (23 October 2006), pp. 881-886.

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Abstract

Computational microRNA (miRNA) target prediction is a field in flux. Here we present a guide through five widely used mammalian target prediction programs. We include an analysis of the performance of these individual programs and of various combinations of these programs. For this analysis we compiled several benchmark data sets of experimentally supported miRNA-target gene interactions. Based on the results, we provide a discussion on the status of target prediction and also suggest a stepwise approach toward predicting and selecting miRNA targets for experimental testing

@article{seth07, abstract = {Computational microRNA (miRNA) target prediction is a field in flux. Here we present a guide through five widely used mammalian target prediction programs. We include an analysis of the performance of these individual programs and of various combinations of these programs. For this analysis we compiled several benchmark data sets of experimentally supported miRNA-target gene interactions. Based on the results, we provide a discussion on the status of target prediction and also suggest a stepwise approach toward predicting and selecting miRNA targets for experimental testing}, author = {Sethupathy, Praveen and Megraw, Molly and Hatzigeorgiou, Artemis G. }, citeulike-article-id = {910622}, doi = {http://dx.doi.org/10.1038/nmeth954}, issn = {1548-7091}, journal = {Nature Methods}, keywords = {microrna, microrna\_target\_prediction}, month = {October}, number = {11}, pages = {881--886}, posted-at = {2007-11-22 12:18:18}, priority = {0}, publisher = {Nature Publishing Group}, title = {A guide through present computational approaches for the identification of mammalian microRNA targets}, url = {http://dx.doi.org/10.1038/nmeth954}, volume = {3}, year = {2006} }

RIS record

TY - JOUR ID - seth07 L3 - citeulike-article-id:910622 TI - A guide through present computational approaches for the identification of mammalian microRNA targets JF - Nature Methods VL - 3 IS - 11 SP - 881 EP - 886 PB - Nature Publishing Group SN - 1548-7091 N2 - Computational microRNA (miRNA) target prediction is a field in flux. Here we present a guide through five widely used mammalian target prediction programs. We include an analysis of the performance of these individual programs and of various combinations of these programs. For this analysis we compiled several benchmark data sets of experimentally supported miRNA-target gene interactions. Based on the results, we provide a discussion on the status of target prediction and also suggest a stepwise approach toward predicting and selecting miRNA targets for experimental testing KW - microrna KW - microrna_target_prediction AU - Sethupathy, Praveen AU - Megraw, Molly AU - Hatzigeorgiou, Artemis PY - 2006/10/23/ UR - http://dx.doi.org/10.1038/nmeth954 ER -

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