Literature DB >> 27259196

Easier, Better, Faster, Stronger: Improved Methods for RNA-Protein Interaction Studies.

Nazmul Haque1, J Robert Hogg2.   

Abstract

The RNA field has been revolutionized by methods that allow genome-scale identification of RNA-protein interaction sites. Two reports now introduce more efficient approaches, opening the technology to wider adoption (Van Nostrand et al., 2016; Zarnegar et al., 2016). Published by Elsevier Inc.

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Year:  2016        PMID： 27259196      PMCID： PMC5592797          DOI： 10.1016/j.molcel.2016.05.019

Source DB:  PubMed          Journal:  Mol Cell        ISSN： 1097-2765            Impact factor:   17.970


  8 in total

1.  Simultaneous generation of many RNA-seq libraries in a single reaction.

Authors:  Alexander A Shishkin; Georgia Giannoukos; Alper Kucukural; Dawn Ciulla; Michele Busby; Christine Surka; Jenny Chen; Roby P Bhattacharyya; Robert F Rudy; Milesh M Patel; Nathaniel Novod; Deborah T Hung; Andreas Gnirke; Manuel Garber; Mitchell Guttman; Jonathan Livny
Journal:  Nat Methods       Date:  2015-03-02       Impact factor: 28.547

2.  irCLIP platform for efficient characterization of protein-RNA interactions.

Authors:  Brian J Zarnegar; Ryan A Flynn; Ying Shen; Brian T Do; Howard Y Chang; Paul A Khavari
Journal:  Nat Methods       Date:  2016-04-25       Impact factor: 28.547

3.  Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP.

Authors:  Markus Hafner; Markus Landthaler; Lukas Burger; Mohsen Khorshid; Jean Hausser; Philipp Berninger; Andrea Rothballer; Manuel Ascano; Anna-Carina Jungkamp; Mathias Munschauer; Alexander Ulrich; Greg S Wardle; Scott Dewell; Mihaela Zavolan; Thomas Tuschl
Journal:  Cell       Date:  2010-04-02       Impact factor: 41.582

4.  Thermostable group II intron reverse transcriptase fusion proteins and their use in cDNA synthesis and next-generation RNA sequencing.

Authors:  Sabine Mohr; Eman Ghanem; Whitney Smith; Dennis Sheeter; Yidan Qin; Olga King; Damon Polioudakis; Vishwanath R Iyer; Scott Hunicke-Smith; Sajani Swamy; Scott Kuersten; Alan M Lambowitz
Journal:  RNA       Date:  2013-05-22       Impact factor: 4.942

5.  Dissecting noncoding and pathogen RNA-protein interactomes.

Authors:  Ryan A Flynn; Lance Martin; Robert C Spitale; Brian T Do; Selena M Sagan; Brian Zarnegar; Kun Qu; Paul A Khavari; Stephen R Quake; Peter Sarnow; Howard Y Chang
Journal:  RNA       Date:  2014-11-19       Impact factor: 4.942

6.  Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP).

Authors:  Eric L Van Nostrand; Gabriel A Pratt; Alexander A Shishkin; Chelsea Gelboin-Burkhart; Mark Y Fang; Balaji Sundararaman; Steven M Blue; Thai B Nguyen; Christine Surka; Keri Elkins; Rebecca Stanton; Frank Rigo; Mitchell Guttman; Gene W Yeo
Journal:  Nat Methods       Date:  2016-03-28       Impact factor: 28.547

7.  iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution.

Authors:  Julian König; Kathi Zarnack; Gregor Rot; Tomaz Curk; Melis Kayikci; Blaz Zupan; Daniel J Turner; Nicholas M Luscombe; Jernej Ule
Journal:  Nat Struct Mol Biol       Date:  2010-07-04       Impact factor: 15.369

8.  HITS-CLIP yields genome-wide insights into brain alternative RNA processing.

Authors:  Donny D Licatalosi; Aldo Mele; John J Fak; Jernej Ule; Melis Kayikci; Sung Wook Chi; Tyson A Clark; Anthony C Schweitzer; John E Blume; Xuning Wang; Jennifer C Darnell; Robert B Darnell
Journal:  Nature       Date:  2008-11-02       Impact factor: 49.962
  8 in total

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