RNA preprints: W40/2018

CRISPR Artificial Splicing Factors. Nathaniel Jillette, Albert W Cheng

PUMILIO hyperactivity drives premature aging of Norad-deficient mice. Florian Kopp, Mehmet Yalvac, Beibei Chen, He Zhang, Sungyul Lee, Frank Gillett, Mahmoud Elguindy, Sushama Sivakumar, Hongtao Yu, Yang Xie, Prashant Mishra, Zarife Sahenk, Joshua T Mendell

Mitochondrial RNA capping: highly efficient 5′-RNA capping with NAD+ and NADH by yeast and human mitochondrial RNA polymerase. Jeremy G. Bird, Urmimala Basu, David Kuster, Aparna Ramachandran, Ewa Grudzien-Nogalska, Megerditch Kiledjian, Dmitry Temiakov, Smita S. Patel, Richard H. Ebright, Bryce E. Nickels

Reversal of microRNA-blocked tumor suppressors by biphenyl- dicarboxylate impedes endotoxin-induced hepatic hyperplasia. Li-Li Tan, Dong-Mei Chen, Jian-Ping Song, Qin Xu, Chang-Qing Li, Qing-Ping Zeng

Viral RNA-dependent RNA polymerase inhibitor 7-deaza-2′-C-methyladenosine prevents death in a mouse model of West Nile virus infection. Ludek Eyer, Martina Fojtíková, Radim Nencka, Ivo Rudolf, Zdenek Hubálek, Daniel Ruzek

Epigenetic silencing of miRNA-338-5p and miRNA-421 drives SPINK1-positive prostate cancer. Vipul Bhatia, Anjali Yadav, Ritika Tiwari, Shivansh Nigam, Sakshi Goel, Shannon Carskadon, Nilesh Gupta, Apul Goel, Nallasivam Palanisamy, Bushra Ateeq

RNA polymerase I transcription fidelity, speed and processivity depend on the interplay of its lobe binding subunits. Herbert Tschochner, Philipp Emanuel Merkl, Michael Pilsl, Tobias Fremter, Gernot Längst, Philipp Milkereit, Joachim Griesenbeck

Pervasiveness of exoribonuclease-resistant RNAs in plant viruses suggests new roles for these conserved RNA structures. Anna-Lena Steckelberg, Quentin Vicens, Jeffrey Scott Kieft

RNA polymerases display collaborative and antagonistic group behaviors over long distances through DNA supercoiling. Sangjin Kim, Bruno Beltran, Irnov Irnov, Christine Jacobs-Wagner

A high-throughput screen identifies small molecule modulators of alternative splicing by targeting RNA G-quadruplexes. Jing Zhang, Samuel E. Harvey, Chonghui Cheng

The cellular NMD pathway restricts Zika virus infection and is targeted by the viral capsid protein. Krystal A Fontaine, Kristoffer E Leon, Mir Mubashir Khalid, Sakshi Tomar, David Jimenez-Morales, Mariah Dunlap, Julia A Kaye, Priya S Shah, Steve Finkbeiner, Nevan J Krogan, Melanie Ott

Dynamic G-quadruplexes on the surface of the human ribosome. Santi Mestre-Fos, Petar I. Penev, Suttipong Suttapitugsakul, Chieri Ito, Anton S. Petrov, Roger M. Wartell, Ronghu Wu, Loren Dean Williams

Defining the RNA Interactome by Total RNA-Associated Protein Purification. Vadim Shchepachev, Stefan Bresson, Christos Spanos, Elisabeth Petfalski, Lutz Fischer, Juri Rappsilber, David Tollervey

Insights into the structure-driven protein interactivity of RNA molecules. Natalia Sanchez de Groot, Alexandros Armaos, Ricardo Grana-Montes, Marion Alriquet, Giulia Calloni, Martin Vabulas, Gian Gaetano Tartagli

RegTools: Integrated analysis of genomic and transcriptomic data for discovery of splicing variants in cancer. Yang-Yang Feng, Avinash Ramu, Kelsy C Cotto, Zachary L Skidmore, Jason Kunisaki, Donald F Conrad, Yiing Lin, William Chapman, Ravindra Uppaulri, Ramaswamy Govindan, Obi L Griffith, Malachi Griffith

A Large-Scale Binding and Functional Map of Human RNA Binding Proteins. Eric L Van Nostrand, Peter Freese, Gabriel A Pratt, Xiaofeng Wang, Xintao Wei, Steven M Blue, Daniel Dominguez, Neal A L Cody, Sara Olson, Balaji Sundararaman, Rui Xiao, Lijun Zhan, Cassandra Bazile, Louis Philip Benoit Bouvrette, Jiayu Chen, Michael O Duff, Keri Garcia, Chelsea Gelboin-Burkhart, Myles Hochman, Nicole J Lambert, Hairi Li, Thai B Nguyen, Tsultrim Palden, Ines Rabano, Shashank Sathe, Rebecca Stanton, Ashley L Louie, Stefan Aigner, Julie Bergalet, Bing Zhou, Amanda Su, Ruth Wang, Brian A Yee, Xiang-Dong Fu, Eric Lecuyer, Christopher B Burge, Brenton Graveley, Gene W Yeo

Evidence for an Integrated Gene Repression Mechanism based on mRNA Isoform Toggling in Human Cells. Ina Hollerer, Juliet C Barker, Victoria Jorgensen, Amy Tresenrider, Claire Dugast-Darzacq, Xavier Darzacq, Leon Y Chan, Robert Tjian, Elcin Unal, Gloria A Brar

Deciphering the rules of mRNA structure differentiation in vivo and in vitro with deep neural networks in Saccharomyces cerevisiae. Haopeng Yu, Wenjing Meng, Yuanhui Mao, Yi Zhang, Qing Sun, Shiheng Tao

Structure of transcribing RNA polymerase II-nucleosome complex. Lucas Farnung, Seychelle M. Vos, Patrick Cramer

Cold denaturation of RNA secondary structures with loop entropy and quenched disorder. Flavio Iannelli, Yevgeni Mamasakhlisov, Roland R. Netz

RNA polymerase interactions and elongation rate. V. Belitsky, G. M. Schütz

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