Abstract：
:RNA transcripts are subject to posttranscriptional gene regulation involving hundreds of RNA-binding proteins (RBPs) and microRNA-containing ribonucleoprotein complexes (miRNPs) expressed in a cell-type dependent fashion. We developed a cell-based crosslinking approach to determine at high resolution and transcriptome-wide the binding sites of cellular RBPs and miRNPs. The crosslinked sites are revealed by thymidine to cytidine transitions in the cDNAs prepared from immunopurified RNPs of 4-thiouridine-treated cells. We determined the binding sites and regulatory consequences for several intensely studied RBPs and miRNPs, including PUM2, QKI, IGF2BP1-3, AGO/EIF2C1-4 and TNRC6A-C. Our study revealed that these factors bind thousands of sites containing defined sequence motifs and have distinct preferences for exonic versus intronic or coding versus untranslated transcript regions. The precise mapping of binding sites across the transcriptome will be critical to the interpretation of the rapidly emerging data on genetic variation between individuals and how these variations contribute to complex genetic diseases.
journal_name
Celljournal_title
Cellauthors
Hafner M,Landthaler M,Burger L,Khorshid M,Hausser J,Berninger P,Rothballer A,Ascano M Jr,Jungkamp AC,Munschauer M,Ulrich A,Wardle GS,Dewell S,Zavolan M,Tuschl Tdoi
10.1016/j.cell.2010.03.009subject
Has Abstractpub_date
2010-04-02 00:00:00pages
129-41issue
1eissn
0092-8674issn
1097-4172pii
S0092-8674(10)00245-Xjournal_volume
141pub_type
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