RNA preprints: W35/2018

The RNA helicase UPF1 associates with mRNAs co-transcriptionally and is required for the release of mRNAs from transcription sites. Anand Kumar Singh, Subhendu Roy Choudhury, Sandip De, Jie Zhang, Stephen Kissane, Vibha Dwivedi, Preethi Ramanathan, Luisa Orsini, Daniel Hebenstreit, Saverio Brogna

PARylation regulates stress granule dynamics, phase separation, and neurotoxicity of disease-related RNA-binding proteins. Yongjia Duan, Aiying Du, Jinge Gu, Gang Duan, Chen Wang, Zhiwei Ma, Le Sun, Beituo Qian, Xue Deng, Kai Zhang, Kuili Tian, Yaoyang Zhang, Hong Jiang, Cong Liu, Yanshan Fang

DSCAM-AS1 promotes tumor growth of breast cancer by reducing miR-204-5p and upregulating RRM2. Wen-Hui Liang, Na Li, Zhi-Qing Yuan, Xin-Lai Qian, Zhi-Hui Wang

Engineered transfer RNAs for suppression of premature termination codons. John D Lueck, Jae Seok Yoon, Alfredo Perales-Puchalt, Adam L Mackey, Daniel T Infield, Mark A Behlke, Marshall R Pope, David B Weiner, William R Skach, Paul B McCray, Christopher A Ahern

Differential amplicons for the evaluation of RNA integrity extracted from complex environmental samples. Fabien Cholet, Umer Zeeshan Ijaz, Cindy Jane Smith

CLIP-Seq and massively parallel functional analysis of the CELF6 RNA binding protein reveals a role in destabilizing synaptic gene mRNAs through interaction with 3’UTR elements in vivo. Michael A Rieger, Dana M King, Barak A Cohen, Joseph D. Dougherty

UNCROSS2: identification of cross-talk in 16S rRNA OTU tables. Robert Edgar

The RNA-Binding Protein DND1 Acts Sequentially as a Negative Regulator of Pluripotency and a Positive Regulator of Epigenetic Modifiers Required for Germ Cell Reprogramming. Victor A Ruthig, Matthew B Friedersdorf, Jason A Garness, Steve C Munger, Corey Bunce, Jack D Keene, Blanche Capel

IsoformSwitchAnalyzeR: Analysis of changes in genome-wide patterns of alternative splicing and its functional consequences. Kristoffer Vitting-Seerup, Albin Sandelin

MiR-505-3p is a Repressor of the Puberty Onset in Female Mice. Yuxun Zhou, li tong, maochun wang, xueying chang, sijia wang, kai li, Junhua Xiao

A quantitative and predictive model for RNA binding by human Pumilio proteins. Inga Jarmoskaite, Sarah K. Denny, Pavanapuresan P. Vaidyanathan, Winston R. Becker, Johan O.L. Andreasson, Curtis J. Layton, Kalli Kappel, Varun Shivashankar, Raashi Sreenivasan, Rhiju Das, William J. Greenleaf, Daniel Herschlag

CTP synthase regulation by miR-975 controls cell proliferation and differentiation in Drosophila melanogaster. Wai-Kan Woo, Najat Dzaki, Ghows Azzam

Staufen2 mediated RNA recognition and localization requires combinatorial action of multiple domains. Simone Heber, Imre Gaspar, Jan-Niklas Tants, Johannes Günther, Sandra M Fernández Moya, Robert Janowski, Anne Ephrussi, Michael Sattler, Dierk Niessing

An homeotic post-transcriptional network controlled by the RNA-binding protein RBMX. Paola Zuccotti, Daniele Peroni, Valentina Potrich, Alessandro Quattrone, Erik Dassi

Pat1 promotes processing body assembly by enhancing the phase separation of the DEAD-box ATPase Dhh1 and RNA. Ruchika Sachdev, Maria Hondele, Miriam Linsenmeier, Pascal Vallotton, Christopher F Mugler, Paolo Arosio, Karsten Weis

MicroRNAs reinforce repression of PRC2 transcriptional targets independently and through a feed-forward regulatory network with PRC2. Haridha Shivram, Steven V Le, Vishwanath R Iyer

Pathogenicity and selective constraint on variation near splice sites. Jenny Lord, Giuseppe Gallone, Patrick J. Short, Jeremy F. McRae, Holly Ironfield, Elizabeth H. Wynn, Sebastian S. Gerety, Liu He, Bronwyn Kerr, Diana S. Johnson, Emma McCann, Esther Kinning, Frances Flinter, I. Karen Temple, Jill Clayton-Smith, Meriel McEntagart, Sally Ann Lynch, Shelagh Joss, Sofia Douzgou, Tabib Dabir, Virginia Clowes, Vivienne P. M. McConnell, Wayne Lam, Caroline F. Wright, David R. FitzPatrick, Helen V. Firth, Jeffrey C. Barrett, Matthew E. Hurles, on behalf of the Deciphering Developmental Disorders study

β-actin mRNA interactome mapping by proximity biotinylation. Joyita Mukherjee, Orit Hermesh, Nicolas Nalpas, Mirita Franz-Wachtel, Boris Macek, Ralf-Peter Jansen

miPIE: NGS-based Prediction of miRNA Using Integrated Evidence. Robert J Peace, Mohsen Sheikh Hassani, James R Green

Anti-microRNA screen uncovers miR-17 family within miR-17~92 cluster as the primary driver of kidney cyst growth. Matanel Yheskel, Ronak Lakhia, Andrea Flaten, Vishal Patel

Identification of microRNA-27a as a key regulator of cholesterol homeostasis. Abrar Ali Khan, Vinayak Gupta, Ananthamohan Kalyani, Vikas Arige, Santosh Reddy, Manoj Kumar Barthwal, Madhu Dikshit, Bhanuprakash Reddy, Nitish Ranjan Mahapatra

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