RNA preprints: W12/2018

COSSMO: Predicting Competitive Alternative Splice Site Selection using Deep Learning. Hannes Bretschneider, Shreshth Gandhi, Khalid Zuberi, Amit G Deshwar, Brendan J Frey

Y chromosomal noncoding RNA regulates autosomal gene expression via piRNAs in mouse testis. Hemakumar M Reddy, Rupa Bhattacharya, Zeenath Jehan, Kankadeb Mishra, Pranatharthi Annapurna, Shrish Tiwari, Nissankararao Mary Praveena, Jomini Liza Alex, Vishnu M Dhople, Lalji Singh, Mahadevan Sivaramakrishnan, Anurag Chaturvedi, Nandini Rangaraj, Shiju Michael Thomas, Badanapuram Sridevi, Sachin Kumar, Ram Reddy Dereddi, Sunayana Rayabandla, Rachel A Jesudasan

SSMART: Sequence-structure motif identification for RNA-binding proteins. Alina Munteanu, Neelanjan Mukherjee, Uwe Ohler

The U1 snRNP subunit LUC7 controls plant development and stress response through alternative splicing regulation. Marcella de Francisco Amorim, Eva-Maria Willing, Anchilie G. Francisco-Mangilet, Irina Droste-Borel, Boris Macek, Korbinian Schneeberger, Sascha Laubinger

Dynamic temperature-sensitive A-to-I RNA editing in the brain of a heterothermic mammal during hibernation. Kent A Riemondy Jr., Austin Gillen, Emily A White, Lori K Bogren, Jay R

Selective maintenance of multiple CRISPR arrays across prokaryotes. Jake L. Weissman, William F. Fagan, Philip L. F. Johnson

Hydrophobicity drives the systemic distribution of lipid-conjugated siRNAs via lipid transport pathways. Maire F. Osborn, Andrew H Coles, Annabelle Biscans, Reka A Haraszti, Loic Roux, Sarah Davis, Socheata Ly, Dimas Echeverria, Matthew R. Hassler, Bruno M.D.C. Godinho, Mehran Nikan, Anastasia Khvorova

An unexpected contribution of lincRNA splicing to enhancer function. Jennifer Y Tan, Adriano Biasini, Robert S Young, Ana Marques

Lipid utilization in skeletal muscle cells is modulated in vitro and in vivo by specific miRNAs. Francesco Chemello, Francesca Grespi, Alessandra Zulian, Pasqua Cancellara, Etienne Hebert-Chatelain, Paolo Martini, Camilla Bean, Enrico Alessio, Riggero Ferrazza, Paolo Laveder, Graziano Guella, Carlo Reggiani, Chiara Romualdi, Paolo Bernardi, Luca Scorrano, Stefano Cagnin, Gerolamo Lanfranchi

Transcriptional read-through of the long non-coding RNA SVALKA governs plant cold acclimation. Peter Kindgren, Ryan Ard, Maxim Ivanov, Sebastian Marquardt

N6-methyladenosine modification and the YTHDF2 reader protein play cell type specific roles in lytic viral gene expression during Kaposi’s sarcoma-associated herpesvirus infection. Charles Hesser, John Karijolich, Dan Dominissini, Chuan He, Britt A. Glaunsinger

MicroRNA-202 (miR-202) controls female fecundity by regulating medaka oogenesis. Stephanie Gay, Jerome Bugeon, Amine Bouchareb, Laure Henry, Jerome Montfort, Aurelie Le Cam, Julien Bobe, Violette Thermes

Crystallographic observation of nonenzymatic RNA primer extension. Jack W Szostak, Wen Zhang, Travis Walton, Li Li

Intronic miRNA Mediated Gene Expression Regulation Controls Protein Crowding Inside the Cell. Prashant Sinha, Pragya Jaiswal, Ashwin Kumar Jainarayanan, Samir Kumar Brahmachari

Preclinical Study: Sunitinib-suppressed MiR-452-5p Facilitates Renal Cancer Cell Invasion and Metastasis Through Modulating SMAD4/SMAD7/EMT Signals. Wei Zhai, Saiyang Li, Jin Zhang, Yonghui Chen, Junjie Ma, Wen Kong, Dongkui Gong, Junhua Zheng, Wei Xue, Yunfei Xu

Evidence for a potential role of miR-1908-5p and miR-3614-5p in autoimmune disease risk using genome-wide analyses. Inken Wohlers, Lars Bertram, Christina Lill

RppH can faithfully replace TAP to allow cloning of 5′-triphosphate carrying small RNAs. Miguel V. Vasconcelos Almeida, António Miguel de Jesus Domingues, Hanna Lukas, Maria Mendez-Lago, René F. Ketting

MechRNA: prediction of lncRNA mechanisms from RNA-RNA and RNA-protein interactions. Alexander Roman Gawronski, Michael Uhl, Yajia Zhang, Yen-Yi Lin, Yashar Niknafs, Varune Ramnarine, Rohit Malik, Felix Feng, Arul Chinnaiyan, Colin Collins, Cenk Sahinalp, Rolf Backofen

Down-regulated Long Noncoding RNA HOXA11-AS affects trophoblast cell proliferation and migration by regulating RND3 and HOXA7 expression in preeclampsia. Lizhou Sun, Yetao Xu, Dan Wu, Jie Liu, Zhonghua Ma, Bingqing Hui, Jing Wang, Yanzi Chen, Sailan Wang, Yifan Lian

Metagenomic sequencing suggests a diversity of RNA interference-like responses to viruses across multicellular eukaryotes. Fergal M Waldron, Graham N Stone, Darren J Obbard

Transcriptome-wide interrogation of the functional intronome by spliceosome profiling. Weijun Chen, Jill Moore, Hakan Ozadam, Hennady P Shulha, Nicholas Rhind, Zhiping Weng, Melissa J. Moore

LncRNA OIP5-AS1 is overexpressed in undifferentiated oral tumors and integrated analysis identifies as a downstream effector of stemness-associated transcription factors. Ganesan Arunkumar, Shankar Anand, Partha Raksha, Shankar Dhamodharan, Harikrishnan Prasanna Srinivasa Rao, Shanmugam Subbiah, Avaniyapuram Kannan Murugan, Arasambattu Kannan Munirajan

Premature termination codons signal targeted gene repair by nonsense mRNA-mediated gene editing in E. coli. Xiaolong Wang, Haibo Peng, Chunyan Li, Xuxiang Wang, Yalei Wang, Gang Chen, Jianye Zhang, Michael Lynch

6mer Seed Toxicity Determines Strand Selection in miRNAs. Quan Q Gao, William E Putzbach, Andrea E Murmann, Siquan Chen, Giovanna Ambrosini, Johannes M Peter, Elizabeth T Bartom, Marcus Peter

Diverse RNA interference strategies in early-branching metazoans. Andrew D Calcino, Selene L Fernandez-Valverde, Ryan J Taft, Bernard M Degnan

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RNA preprints: W11/2018

6mer Seed Toxicity Determines Strand Selection in miRNAs. Quan Q Gao, William E Putzbach, Andrea E Murmann, Siquan Chen, Giovanna Ambrosini, Johannes M Peter, Elizabeth T Bartom, Marcus Peter

Genome-wide features of introns are evolutionary decoupled among themselves and from genome size throughout Eukarya. Irma Lozada-Chávez, Peter F Stadler, Sonja J Prohaska

Phenotypic expansion in DDX3X — a common cause of intellectual disability in females. Xia Wang, Jill A Rosenfeld, Carlos A Bacino, Fernando Scaglia, LaDonna Immken, Jill M Harris, Scott E Hickey, Theresa M Mosher, Anne Slavotinek, Jing Zhang, Joke Beuten, Magalie S Leduc, Weimin He, Francesco Vetrini, Magdalena Walkiewicz, Weimin Bi, Rui Xiao, Yunru Shao, Alper Gezdirici, Yunyun Jiang, Adam Hansen, Davut Pehlivan, Juliette Piard, Donna Muzny, Neil Hanchard, John Belmont, Lionel van Maldergem, Richard Gibbs, Mohammad Eldomery, Zeynep Akdemir, Tamar Harel, Jennifer E Posey, Adekunle Adesina, Shan Chen, Members of the UDN, Brendan Lee, James R Lupski, Christine Eng, Fan Xia, Yaping Yang, Brett Graham, Paolo Moretti

Cis-directed cleavage and nonstoichiometric abundances of 21-nt reproductive phasiRNAs in grasses. Saleh Tamim, Zhaoxia Cai, Sandra Mathioni, Jixian Zhai, Chong Teng, Qifa Zhang, Blake C. Meyers

Reproductive phasiRNAs in grasses are compositionally distinct from other classes of small RNAs. Parth Patel, Sandra Mathioni, Atul Kakrana, Hagit Shatkay, Blake C. Meyers

P-bodies and the miRNA pathway regulate translational repression of bicoid mRNA during Drosophila melanogaster oogenesis. John M. McLaughlin, Daniel FQ Smith, Irina E. Catrina, Diana P. Bratu

Previously characterized Caenorhabditis elegans RNA interference-resistant mutants retain substantial silencing capacity. Jennifer L Watts, Jason S Watts, James Dalelio, Quentin Guenther

A conserved nuclear export complex coordinates transcripts for dopaminergic synaptogenesis and neuronal survival. Celine I Maeder, Jae-Ick Kim, Konstantin Kaganovsky, Ao Shen, Qin Li, Zhaoyu Li, X.Z. Shawn Xu, Jin Billy Li, Yang K. Xiang, Jun B. Ding, Kang Shen

Backbone Brackets and Arginine Tweezers delineate Class I and Class II aminoacyl tRNA synthetases. Florian Kaiser, Sebastian Bittrich, Sebastian Salentin, Christoph Leberecht, V. Joachim Haupt, Sarah Krautwurst, Michael Schroeder, Dirk Labudde

QTL mapping of natural variation reveals that the developmental regulator bruno reduces tolerance to P-element transposition in the Drosophila female germline. Erin Kelleher, Jaweria Jaweria, Uchechukwu Akoma, Lily Ortega, Wenpei Tang

Meta-microRNAs as potential noninvasive markers for early diagnosis of Alzheimer’s disease. Ning Jiang, Can-Jun Ruan, Xiao-Rui Cheng, Lu-Ning Wang, Ji-Ping Tan, Wei-Shan Wang, Fang Liu, Wen-Xia Zhou, Yong-Xiang Zhang

Novel role of Lin28 signaling in regulation of mammalian PNS and CNS axon regeneration. Xue-Wei Wang, Chang-Mei Liu, Philip A Hall, Jing-Jing Jiang, Christopher D Katchis, Sehwa Kang, Bryan C Dong, Shuxin Li, Feng-Quan Zhou

MiR-505-3p, a New Repressor of Puberty Onset in Female Mice. Li Tong, Maochun Wang, Yuxun Zhou, Yu Li, Li Chen, Fuyi Xu, Kai Li, Junhua Xiao

Evolutionary analysis implicates RNA polymerase II pausing and chromatin structure in nematode piRNA biogenesis. Toni Beltran, Consuelo Barruso, Timothy Birkle, Lewis Stevens, Hillel T Schwartz, Paul Sternberg, Helene Fradin, Kristin Gunsalus, Fabio Piano, Enrique Martinez-Perez, Mark Blaxter, Peter Sarkies

Utp14 interaction with the Small Subunit Processome. Joshua J Black, Zhaohui Wang, Lisa M Goering, Arlen Johnson

Barcoded oligonucleotides ligated on RNA amplified for multiplex and parallel in-situ analyses. Eswar Prasad Ramachandran Iyer, Sukanya Punthambaker, Songlei Liu, Kunal Jindal, Michael Farrell, Jernej Murn, Thomas Ferrante, Stewart Rudnicki, Richie E. Kohman, Asmamaw T. Wassie, Daniel Goodwin, Fei Chen, Shahar Alon, Anubhav Sinha, Denitsa Milanova, Liviu Aron, Conor Camplisson, Alex Skrynnyk, Paul Louis Reginato, Nicholas Conway, John Aach, Bruce Yankner, Edward S Boyden, George M. Church

Genomic basis for RNA alterations revealed by whole-genome analyses of 27 cancer types. PCAWG Transcriptome Core Group, Claudia Calabrese, Natalie R Davidson, Nuno A Fonseca, Yao He, André Kahles, Kjong-Van Lehmann, Fenglin Liu, Yuichi Shiraishi, Cameron M Soulette, Lara Urban, Deniz Demircioğlu, Liliana Greger, Siliang Li, Dongbing Liu, Marc D Perry, Linda Xiang, Fan Zhang, Junjun Zhang, Peter Bailey, Serap Erkek, Katherine A Hoadley, Yong Hou, Helena Kilpinen, Jan O Korbel, Maximillian G Marin, Julia Markowski, Tannistha Nandi, Qiang Pan-Hammarström, Chandra Sekhar Pedamallu, Reiner Siebert, Stefan G Stark, Hong Su, Patrick Tan, Sebastian M Waszak, Christina Yung, Shida Zhu, PCAWG Transcriptome Working Group, Philip Awadalla, Chad J Creighton, Matthew Meyerson, B.F. Francis Ouellette, Kui Wu, Huanming Yang, ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Network, Alvis Brazma, Angela N Brooks, Jonathan Göke, Gunnar Rätsch, Roland F Schwarz, Oliver Stegle, Zemin Zhang

Identification of microRNAs in the green and red sectors of Amaranthus tricolor L. leaves based on Illumina sequencing data. Shengcai Liu, Liyun Peng, Junfei Pan, Xiao Wang, Chunli Zhao, Chunzhen Cheng, Zihao Zhang, Yuling Lin, Xu XuHan, Zhongxiong Lai

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RNA preprints: W10/2018

Bacteriophage cooperation suppresses CRISPR-Cas3 and Cas9 immunity. Adair L Borges, Jenny Y Zhang, MaryClare Rollins, Beatriz A Osuna, Blake Wiedenheft, Joseph Bondy-Denomy

A Network of Noncoding Regulatory RNAs Acts in the Mammalian Brain. Benjamin Kleaveland, Charlie Y Shi, Joanna Stefano, David P Bartel

An important class of intron retention events in human erythroblasts is regulated by cryptic exons proposed to function as splicing decoys. Marilyn Parra, Ben W. Booth, Richard Weiszmann, Brian A. Yee, Gene W. Yeo, James B. Brown, Susan E. Celniker, John G. Conboy

Efficient computation of co-transcriptional RNA-ligand interaction dynamics. Michael T Wolfinger, Christoph Flamm, Ivo L Hofacker

Structure of the 30S ribosomal decoding complex at ambient temperature. E. Han Dao, Frederic Poitevin, Raymond G. Sierra, Cornelius Gati, Yashas Rao, Halil Ibrahim Ciftci, Fulya Akşit, Alex McGurk, Trevor Obrinski, Paul Mgbam, Brandon Hayes, Casper de Lichtenberg, Fatima Pardo-Avila, Nicholas Corsepius, Lindsey Zhang, Matt Seaberg, Mark S. Hunter, Mengling Liang, Jason E. Koglin, Soichi Wakatsuki, Hasan DeMirci

Selection removes Shine-Dalgarno-like sequences from within protein coding genes. Adam J Hockenberry, Luis AN Amaral, Michael C Jewett, Claus O Wilke

OMCD: OncoMir Cancer Database. Aaron Sarver, Anne Sarver, Ce Yuan, Subbaya Subramanian

Anti-CRISPR phages cooperate to overcome CRISPR-Cas immunity. Mariann Landsberger, Sylvain Gandon, Sean Meaden, Hélène Chabas, Angus Buckling, Edze R. Westra, Stineke van Houte

Conserved Methyltransferase Spb1 Targets mRNAs for Regulated Modification with 2′-O-Methyl Ribose. Kristen M Bartoli, Cassandra Schaening, Thomas Carlile, Wendy V Gilbert

RNA-directed activation of cytoplasmic dynein-1 in reconstituted transport RNPs. Mark A McClintock, Carly I Dix, Christopher M Johnson, Stephen H McLaughlin, Rory J Maizels, Ha Thi Hoang, Simon L Bullock

The RNA polymerase clamp interconverts dynamically among three states and is stabilized in a partly closed state by ppGpp. Diego Duchi, Abhishek Mazumder, Anssi M Malinen, Richard Ebright, Achillefs Kapanidis

Higher-Order Organization Principles of Pre-translational mRNPs. Mihir Metkar, Hakan Ozadam, Bryan R. Lajoie, Maxim Imakaev, Leonid A. Mirny, Job Dekker, Melissa J. Moore

Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons. Sarah A Middleton, James Eberwine, Junhyong Kim

EukRef: phylogenetic curation of ribosomal RNA to enhance understanding of eukaryotic diversity and distribution. Javier del Campo, Martin Kolisko, Vittorio Boscaro, Luciana F. Santoferrara, Ramon Massana, Laure Guillou, Alastair Simpson, Cedric Berney, Colomban de Vargas, Matt Brown, Patrick Keeling, Laura Wegener Parfrey

Comprehensive analysis of small RNA profile by massive parallel sequencing in HTLV-1 asymptomatic subjects with monoclonal and polyclonal rearrangement of the T-cell antigen receptor γ-chain. Daniela Raguer Valadão de Souza, Rodrigo Pessôa, Youko Nukui, Juliana Pereira, Jorge Casseb, Augusto César Penalva de Oliveira, Patricia Bianca Clissa, Sabri Saeed Sanabani

Formation of tRNA wobble inosine in humans is perturbed by a millennia-old mutation linked to intellectual disability. Jillian Ramos, Lu Han, Yan Li, Fowzan S Alkuraya, Eric M Phizicky, Dragony Fu

mRNA structure determines specificity of a polyQ-driven phase separation. Erin M Langdon, Yupeng Qiu, Amirhossein Ghanbari Niaki, Grace McLaughlin, Chase Weidmann, Therese Gerbich, Jean A Smith, John M Crutchley, Christina M Termini, Kevin M Weeks, Sua Myong, Amy Gladfelter

A dual sRNA in Staphylococcus aureus induces a metabolic switch responding to glucose consumption. Delphine Bronesky, Emma Desgranges, Anna Corvaglia, Patrice François, Carlos J Caballero, Laura Prado, Alejandro Toledo-Arana, Inigo Lasa, Karen Moreau, François Vandenesch, Stefano Marzi, Pascale Romby, Isabelle Caldelari

A learning-based framework for miRNA-disease association prediction using neural networks. Jiajie Peng, Weiwei Hui, Qianqian Li, Bolin Chen, Zhongyu Wei, Xuequn Shang

miR-21-5p and miR-30a-5p are identical in human and bovine, have similar isomiR distribution, and cannot be used to identify xenomiR uptake from cow milk. Bastian Fromm, Juan Pablo Tosar, Lin Yu, Marc K Halushka, Kenneth W Witwer

Analysis of P granules in vivo and ex vivo. Jarrett Smith, Geraldine Seydoux

Long-read sequencing of nascent RNA reveals coupling among RNA processing events. Lydia Herzel, Korinna Straube, Karla M. Neugebauer

Transgenerational sterility of small RNA genome silencing mutants in response to germ granule dysfunction. Katherine Kretovich Billmyre, Bree Heestand, Maya Spichal, Shawn Ahmed

Ferrous iron folds rRNA and mediates translation. Marcus S Bray, Timothy K Lenz, Jessica C Bowman, Anton S Petrov, Amit R Reddi, Nicholas V Hud, Loren D Williams, Jennifer B Glass

A method for simultaneous targeted mutagenesis of all nuclear rDNA repeats in Saccharomyces cerevisiae using CRISPR-Cas9. Lilly Chiou, Daniele Armaleo

Single nucleotide polymorphisms that modulate microRNA regulation of gene expression in tumors. Gary Wilk, Rosemary Braun

SentRNA: Improving computational RNA design by incorporating a prior of human design strategies. Jade Shi (EteRNA players), Rhiju Das, Vijay S. Pande

Global analysis of A-to-I RNA editing reveals association with common disease variants. Oscar Franzén, Raili Ermel, Katyayani Sukhavasi, Rajeev Jain, Anamika Jain, Christer Betsholtz, Chiara Giannarelli, Jason C. Kovacic, Arno Ruusalepp, Josefin Skogsberg, Ke Hao, Eric E. Schadt, Johan L.M. Björkegren

RNA preprints: W9/2018

Genetically regulated human NODAL splice variants are differentially post-transcriptionally processed and functionally distinct. Scott D Findlay, Olena Bilyk, Kiefer Lypka, Andrew J Waskiewicz, Lynne-Marie Postovit

A critical role for miR-142 in alveolar epithelial lineage formation. Amit Shrestha, Carraro Gianni, Nicolas Nottet, Ana Ivonne Vasquez-Armendariz, Susanne Herold, Julio Cordero, Indra Bahadur Singh, Jochen Wilhelm, Guillermo Barreto, Cho-Ming Chao, Elie El Agha, Bernard Mari, Jin-San Zhang, Saverio Bellusci

SpliceVec: distributed feature representations for splice junction prediction. Aparajita Dutta, Tushar Dubey, Kusum Kumari Singh, Ashish Anand

reactIDR: Evaluation of the statistical reproducibility of high-throughput structural analyses for a robust RNA reactivity classification. Risa Kawaguchi, Hisanori Kiryu, Junichi Iwakiri, Jun Sese

A stable mode of bookmarking by TBP recruits RNA Polymerase II to mitotic chromosomes. Sheila S Teves, Luye An, Aarohi Bhargava-Shah, Liangqi Xie, Xavier Darzacq, Robert Tjian

Differential splicing of ANP32A in birds alters its ability to stimulate RNA synthesis by restricted influenza polymerase. Steven F Baker, Mitchell P Ledwith, Andrew Mehle

Transcriptional burst initiation and polymerase pause release are key control points of transcriptional regulation. Caroline R Bartman, Cheryl A Keller, Belinda Giardine, Ross C Hardison, Gerd A Blobel, Arjun Raj

Accessibility of the Shine-Dalgarno sequence dictates N-terminal codon bias in E. coli. Sanchari Bhattacharyya, William M. Jacobs, Bharat V. Adkar, Jin Yan, Wenli Zhang, Eugene I. Shakhnovich

Molecular Genetic Analysis of Rbm45/Drbp1: Genomic Structure, Expression, and Evolution. Lauren Price, Abigail Loewen Faul, Aleksandra Vuchkovska, Kevin Lopez, Katie Fast, Andrew Eck, David Hoferer, Jeffrey O Henderson

Efficient expression of genes in the Drosophila germline using a UAS-promoter free of interference by Hsp70 piRNAs. Steven Z DeLuca, Allan C Spradling

mRNA structure dynamics identifies the embryonic RNA regulome. Jean-Denis Beaudoin, Eva Maria Novoa, Charles E Vejnar, Valeria Yartseva, Carter Takacs, Manolis Kellis, Antonio J Giraldez

The conserved phosphatase GSP-2/PP1 promotes germline immortality via small RNA-mediated genome silencing during meiosis. Katherine K Billmyre, Anna-lisa Doebley, Bree Heestand, Tony Belicard, Aya Sato-Carlton, Stephane Flibotte, Matt Simon, Megan Gnazzo, Ahna Skop, Donald Moerman, Peter Mark Carlton, Peter Sarkies, Shawn Ahmed

Repeat-specific functions for the C-terminal domain of RNA polymerase II in budding yeast. Michael Babokhov, Mohammad M Mosaheb, Richard W Baker, Stephen M Fuchs

N6-methyladenosine Binding Proteins Negatively Regulate HIV-1 Infectivity and Viral Production. Wuxun Lu, Nagaraja Tirumuru, Pratibha C. Koneru, Chang Liu, Mamuka Kvaratskhelia, Chuan He, Li Wu

miRNAs in platelet-poor blood plasma and purified RNA are highly stable: a confirmatory study. Dillon C Muth, Bonita H Powell, Zezhou Zhao, Kenneth W Witwer

RNA-directed activation of cytoplasmic dynein-1 in reconstituted transport RNPs. Mark A McClintock, Carly I Dix, Christopher M Johnson, Stephen H McLaughlin, Rory J Maizels, Ha Thi Hoang, Simon L Bullock

Evidence for a unique DNA-dependent RNA polymerase in cereal crops. Joshua T Trujillo, Arun S. Seetharam, Matthew B Hufford, Mark A Beilstein, Rebecca A Mosher

Dazl regulates germ cell survival through a network of polyA proximal mRNA interactions. Leah L Zagore, Thomas J Sweet, Molly M Hannigan, Sebastien M Weyn-Vanhentenryck, Chaolin Zhang, Donny D Licatalosi

Recruitment of Two Dyneins to an mRNA-Dependent Bicaudal D Transport Complex. Thomas E. Sladewski, Neil Billington, M. Yusuf Ali, Carol S. Bookwalter, Hailong Lu, Elena B. Krementsova, Trina A. Schroer, Kathleen M. Trybus

Control of mRNA decapping by autoinhibition. David R Paquette, Ryan W Tibble, Tristan S Daifuku, John D Gross

In silico design of ligand triggered RNA switches. Sven Findeiß, Stefan Hammer, Michael T. T. Wolfinger, Felix Kuehnl, Christoph Flamm, Ivo L. Hofacker

Compartmentalized RNA catalysis in membrane – free coacervate protocells. Bjoern Drobot, Juan M. Iglesias-Artola, Kris Le Vay, Viktoria Mayr, Mrityunjoy Kar, Moritz Kresying, Hannes Mutschler, T-Y. Dora Tang

MicroRNA-449 sustains cilia-related networks in the absence of transcription factor TAp73. Merit Wildung, Tilman Uli Esser, Katie Baker Grausam, Cornelia Wiedwald, Li Li, Jessica Lynn Simcox Zylla, Ann-Kathrin Günther, Magdalena Wienken, Evrim Ercetin, Felix Bremmer, Orr Shomroni, Stefan Andreas, Haotian Zhao, Muriel Lizé

Disruption in A-to-I editing levels affects C. elegans development more than a complete lack of editing. Nabeel S. Ganem, Noa Ben-Asher, Aidan C. Manning, Sarah N. Deffit, Michael C. Washburn, Emily C. Wheeler, Gene W Yeo, Orna Ben-Naim Zgayer, Einav Mantsur, Heather A. Hundley, Ayelet T Lamm

MicroRNAs as potential therapeutics to enhance chemosensitivity in advanced prostate cancer. Hui-Ming Lin, Iva Nikolic, Jessica Yang, Lesley Castillo, Niantao Deng, Chia-Ling Chan, Nicole K Yeung, Eoin Dodson, Benjamin Elsworth, Calan Spielman, Brian Lee, Zoe Boyer, Kaylene Simpson, Roger J Daly, Lisa G Horvath, Alexander Swarbrick

The yeast core spliceosome maintains genome integrity through R-loop prevention and alpha-tubulin expression. Annie S Tam, Veena Mathew, Tianna S Sihota, Anni Zhang, Peter C Stirling

Noise-induced bistability in the quasineutral coexistence of viral RNA under different replication modes. Tomas Alarcon, Josep Sardanyes, Andreu Arderiu, Santiago Elena

α-proteobacterial RNA degradosomes assemble liquid-liquid phase separated RNP bodies. Nadra Al-Husini, Dylan T Tomares, W. Seth Childers, Jared Schrader

Circular RNA expression and regulatory network prediction in posterior cingulate astrocytes in elderly subjects. Shobana Sekar, Lori Cuyugan, Jonathan Adkins, Philipp Geiger, Winnie Liang

Conserved Methyltransferase Spb1 Targets mRNAs for Regulated Modification with 2′-O-Methyl Ribose. Kristen M Bartoli, Cassandra Schaening, Thomas Carlile, Wendy V Gilbert

Differential expression of an alternative splice variant of IL-12Rβ1 impacts early dissemination in the mouse and associates with disease outcome in both mouse and humans exposed to tuberculosis. Mrinal K Das, Aurelie A Ray, Yi Cai, Akul Singhania, Christine Graham, Mingfeng Liao, Jeffrey J Fountain, John E Pearl, Manish Pareek, Pranabashis Haldar, Anne O’Garra, Xinchun Chen, Andrea M Cooper

Sex-biased long non-coding RNAs negatively correlated with sex-opposite protein coding gene co-expression networks in Diversity Outbred mouse liver. Tisha Melia, David J Waxman

bpRNA: Large-scale Automated Annotation and Analysis of RNA Secondary Structure. Padideh Danaee, Mason Rouches, Michelle Wiley, Dezhong Deng, LIang Huang, David A Hendrix

The exon junction complex regulates the release and phosphorylation of paused RNA polymerase II. Junaid Akhtar, Nastasja Kreim, Federico Marini, Giriram Kumar Mohana, Daniel Brune, Harald Binder, Jean-Yves Roignant

Multiple Small RNAs Alter Membrane Lipid Composition via Post-Transcriptional Regulation of Cyclopropane Fatty Acid Synthase. Colleen M. Bianco, Carin K. Vanderpool

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