Argonaute HITS-CLIP decodes microRNA|[ndash]|mRNA interaction maps Export

@article{citeulike:4920669, abstract = {MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein–RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein–RNA complexes in mouse brain. This produced two simultaneous data sets—Ago–miRNA and Ago–mRNA binding sites—that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA–mRNA interactions.}, author = {Chi, Sung W. and Zang, Julie B. and Mele, Aldo and Darnell, Robert B.}, booktitle = {Nature}, citeulike-article-id = {4920669}, citeulike-linkout-0 = {http://dx.doi.org/10.1038/nature08170}, citeulike-linkout-1 = {http://dx.doi.org/10.1038/nature08170}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/19536157}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=19536157}, day = {17}, doi = {10.1038/nature08170}, issn = {0028-0836}, journal = {Nature}, keywords = {ago, bioinfo, mirna, mrna, ternay\_structure, tool}, month = {June}, number = {7254}, pages = {479--486}, posted-at = {2009-07-02 21:48:01}, priority = {2}, publisher = {Nature Publishing Group}, title = {Argonaute HITS-CLIP decodes microRNA|[ndash]|mRNA interaction maps}, url = {http://dx.doi.org/10.1038/nature08170}, volume = {460}, year = {2009} }

TY - JOUR ID - citeulike:4920669 L3 - citeulike-article-id:4920669 N2 - MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein–RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein–RNA complexes in mouse brain. This produced two simultaneous data sets—Ago–miRNA and Ago–mRNA binding sites—that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA–mRNA interactions. IS - 7254 JF - Nature SN - 0028-0836 EP - 486 TI - Argonaute HITS-CLIP decodes microRNA|[ndash]|mRNA interaction maps PB - Nature Publishing Group VL - 460 T2 - Nature SP - 479 KW - ago KW - bioinfo KW - mirna KW - mrna KW - ternay_structure KW - tool AU - Chi, Sung AU - Zang, Julie AU - Mele, Aldo AU - Darnell, Robert PY - 2009/06/17/ UR - http://dx.doi.org/10.1038/nature08170 ER -