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• W2981106976 abstract "Abstract A critical step in uncovering rules of RNA processing is to study the in vivo regulatory networks of RNA binding proteins (RBPs). Crosslinking and immunoprecipitation (CLIP) methods enabled mapping RBP targets transcriptome-wide, but methodological differences present challenges to large-scale integrated analysis across datasets. The development of enhanced CLIP (eCLIP) enabled the large-scale mapping of targets for 150 RBPs in K562 and HepG2, creating a unique resource of RBP interactomes profiled with a standardized methodology in the same cell types. Here we describe our analysis of 223 enhanced (eCLIP) datasets characterizing 150 RBPs in K562 and HepG2 cell lines, revealing a range of binding modalities, including highly resolved positioning around splicing signals and mRNA untranslated regions that associate with distinct RBP functions. Quantification of enrichment for repetitive and abundant multi-copy elements reveals 70% of RBPs have enrichment for non-mRNA element classes, enables identification of novel ribosomal RNA processing factors and sites and suggests that association with retrotransposable elements reflects multiple RBP mechanisms of action. Analysis of spliceosomal RBPs indicates that eCLIP resolves AQR association after intronic lariat formation (enabling identification of branch points with single-nucleotide resolution) and provides genome-wide validation for a branch point-based scanning model for 3’ splice site recognition. Further, we show that eCLIP peak co-occurrences across RBPs enables the discovery of novel co-interacting RBPs. Finally, we present a protocol for visualization of RBP:RNA complexes in the eCLIP workflow using biotin and standard chemiluminescent visualization reagents, enabling simplified confirmation of ribonucleoprotein enrichment without radioactivity. This work illustrates the value of integrated analysis across eCLIP profiling of RBPs with widely distinct functions to reveal novel RNA biology. Further, our quantification of both mRNA and other element association will enable further research to identify novel roles of RBPs in regulating RNA processing." @default.
• W2981106976 created "2019-10-25" @default.
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• W2981106976 date "2019-10-16" @default.
• W2981106976 modified "2023-09-27" @default.
• W2981106976 title "Principles of RNA processing from analysis of enhanced CLIP maps for 150 RNA binding proteins" @default.
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• W2981106976 cites W1986204780 @default.
• W2981106976 cites W1986884782 @default.
• W2981106976 cites W1991814868 @default.
• W2981106976 cites W1997535872 @default.
• W2981106976 cites W1999609473 @default.
• W2981106976 cites W2001554877 @default.
• W2981106976 cites W2007343993 @default.
• W2981106976 cites W2010615446 @default.
• W2981106976 cites W2014216846 @default.
• W2981106976 cites W2016763316 @default.
• W2981106976 cites W2026671856 @default.
• W2981106976 cites W2034806022 @default.
• W2981106976 cites W2041157094 @default.
• W2981106976 cites W2053003053 @default.
• W2981106976 cites W2053998703 @default.
• W2981106976 cites W2058615001 @default.
• W2981106976 cites W2066876408 @default.
• W2981106976 cites W2076304893 @default.
• W2981106976 cites W2076825429 @default.
• W2981106976 cites W2079136832 @default.
• W2981106976 cites W2079517684 @default.
• W2981106976 cites W2089891619 @default.
• W2981106976 cites W2092594973 @default.
• W2981106976 cites W2098412979 @default.
• W2981106976 cites W2098474039 @default.
• W2981106976 cites W210302837 @default.
• W2981106976 cites W2109906618 @default.
• W2981106976 cites W2111375641 @default.
• W2981106976 cites W2112538318 @default.
• W2981106976 cites W2115521704 @default.
• W2981106976 cites W2117022436 @default.
• W2981106976 cites W2120161238 @default.
• W2981106976 cites W2124514674 @default.
• W2981106976 cites W2129424750 @default.
• W2981106976 cites W2130410032 @default.
• W2981106976 cites W2158482911 @default.
• W2981106976 cites W2168909179 @default.
• W2981106976 cites W2169957820 @default.
• W2981106976 cites W2171904397 @default.
• W2981106976 cites W2178951082 @default.
• W2981106976 cites W2223836536 @default.
• W2981106976 cites W2259938310 @default.
• W2981106976 cites W2297344571 @default.
• W2981106976 cites W2307041907 @default.
• W2981106976 cites W2339326063 @default.
• W2981106976 cites W2411532005 @default.
• W2981106976 cites W2511208856 @default.
• W2981106976 cites W2527824902 @default.
• W2981106976 cites W2532542819 @default.
• W2981106976 cites W2539099468 @default.
• W2981106976 cites W2594571493 @default.
• W2981106976 cites W2616561032 @default.
• W2981106976 cites W2736275121 @default.
• W2981106976 cites W2741517930 @default.
• W2981106976 cites W2750472843 @default.
• W2981106976 cites W2766540884 @default.
• W2981106976 cites W2775351627 @default.
• W2981106976 cites W2788821211 @default.
• W2981106976 cites W2789284726 @default.
• W2981106976 cites W2794416695 @default.
• W2981106976 cites W2797495365 @default.
• W2981106976 cites W2811094325 @default.
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• W2981106976 cites W2946931111 @default.
• W2981106976 cites W2948393771 @default.
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• W2981106976 doi "https://doi.org/10.1101/807008" @default.
• W2981106976 hasPublicationYear "2019" @default.
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