RNA preprints: W51/2018

Dicer-like 5 deficiency confers temperature-sensitive male sterility in maize. Chong Teng, Han Zhang, Reza Hammond, Kun Huang, Blake Meyers, Virginia Walbot

Expression of the miR-302/367 microRNA cluster is regulated by a conserved long non-coding host gene. Karim Rahimi, Annette Christine Fuchtbauer, Fardin Fathi, Seyed Javad Mowla, Ernst-Martin Fuchtbauer

Molecular determinants of metazoan tricRNA biogenesis. Casey A. Schmidt, Joseph D. Giusto, A. Gregory Matera

Control of noncoding RNA production and histone levels by a 5′ tRNA fragment. Ana Boskovic, Xin Yang Bing, Ebru Kaymak, Oliver J Rando

Bayesian inference and comparison of stochastic transcription elongation models. Jordan Douglas, Richard Kingston, Alexei Drummond

Decoding the Epitranscriptional Landscape from Native RNA Sequences. Thidathip Wongsurawat, Piroon Jenjaroenpun, Trudy M Wassenaar, Taylor D Wadley, Visanu Wanchai, Nisreen N Akel, Aime T Franco, Michael L Jennings, David W Ussery, Intawat Nookaew

Computational Discovery of Evolutionary Conserved Enterovirus 71 RNA Secondary Structures. Nathan Fridlyand, Alexander N Lukashev, Andrey Chursov, Franco M Venanzi, Jonathan W Yewdell, Albert A Sufianov, Alexander Shneider

Deconvoluting Stress-Responsive Proteostasis Signaling Pathways for Pharmacologic Activation using Targeted RNA-sequencing. Julia M.D. Grandjean, Lars Plate, Richard I. Morimoto, Michael J. Bollong, Evan T. Powers, R Luke Wiseman

Identifying A- and P-site locations on ribosome-protected mRNA fragments using Integer Programming. Nabeel Ahmed, Pietro Sormanni, Prajwal Ciryam, Michele Vendruscolo, Christopher M Dobson, Edward P O’Brien

In vivo measurements reveal a single 5′ intron is sufficient to increase protein expression level in C. elegans. Matthew M Crane, Bryan Sands, Christian J Battaglia, Brock J Johnson, Soo Yun, Matt Kaeberlein, Roger Brent, Alexander Mendenhall

Dynamic ensemble of HIV-1 RRE stem IIB reveals non-native conformations that disrupt the Rev binding site. Chia-Chieh Chu, Raphael Plangger, Christoph Kreutz, Hashim M. Al-Hashimi

Predicting circRNA-RBP interaction sites using a codon-based encoding and hybrid deep neural networks. Kaiming Zhang, Xiaoyong Pan, Yang Yang, Hong-Bin Shen

Functional characterization of Arabidopsis ARGONAUTE 3 in reproductive tissue. Pauline E Jullien, Stefan Grob, Antonin Marchais, Nathan Pumplin, Clement Chevalier, Caroline Otto, Gregory Schott, Olivier Voinnet

Transcription factor TAp73 and microRNA-449 complement each other to support multiciliogenesis. Merit Wildung, Tilman Uli Esser, Katie Baker Grausam, Cornelia Wiedwald, Larisa Volceanov-Hahn, Dietmar Riedel, Sabine Beuermann, Li Li, Jessica Lynn Simcox Zylla, Ann-Kathrin Guenther, Magdalena Wienken, Evrim Ercetin, Zhiyuan Han, Felix Bremmer, Orr Shomroni, Stefan Andreas, Haotian Zhao, Muriel Lizé

The Landscape Of Circular RNA Expression In The Human Brain. Akira Gokoolparsadh, Firoz Anwar, Irina Voineagu

Structures of the Catalytically Activated Yeast Spliceosome Reveal the Mechanism of Branching. Ruixue Wan, Rui Bai, Chuangye Yan, Jianlin Lei, Yigong Shi

miR-216b-5p is Down-Regulated in Human Breast Cancer and Inhibits Proliferation and Progression by Targeting HDAC8 Oncogene. Mohammad-Nazir Menbari, Karim Rahimi, Abbas Ahmadi, Samira Mohammadi-Yeganeh, Anvar Elyasi, Nikoo Darvishi, Vahedeh Hosseini, Mohammad Abdi

De novo Design of Translational RNA Repressors. Paul D Carlson, Cameron J Glasscock, Julius B Lucks

MicroRNA-deficient embryonic stem cells acquire a functional Interferon response. Jeroen Witteveldt, Lisanne Iris Knol, Sara Macias

Analysis of small RNA silencing in Zymoseptoria tritici – wheat interactions. Graeme J. Kettles, Bernhard J. Hofinger, Pingsha Hu, Carlos Bayon, Jason J. Rudd, Dirk Balmer, Mikael Courbot, Kim E. Hammond-Kosack, Gabriel Scalliet, Kostya Kanyuka

Spliceosomal Prp8 intein at the crossroads of protein and RNA splicing. Cathleen M. Green, Zhong Li, Olga Novikova, Valjean R. Bacot-Davis, Fenghan Gao, Nilesh K. Banavali, Hongmin Li, Marlene Belfort

mTORC1 Restricts Hepatitis C Virus Replication Through ULK1-mediated Suppression of miR-122 and Facilitates Post-replication Events. Manish Kumar Johri, Hiren Vasantrai Lashkari, Dhiviya Vedagiri, Divya Gupta, Krishnan Harshan

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

Small RNA bidirectional crosstalk during the interaction between wheat and Zymoseptoria tritici. Xin Ma, Nicolas Bologna, Javier Palma-Guerrero

ASCOT identifies key regulators of neuronal subtype-specific splicing. Jonathan P. Ling, Christopher Wilks, Rone Charles, Devlina Ghosh, Lizhi Jiang, Clayton P. Santiago, Bo Pang, Anand Venkataraman, Brian S. Clark, Abhinav Nellore, Ben Langmead, Seth Blackshaw

Design of a Synthetic sRNA-based Feedback Filter Module. Nicolas Delalez, Aivar Sootla, George H. Wadhams, Antonis Papachristodoulou

A role for gut microbiota in m6A epitranscriptomic mRNA modifications in different host tissues. Sabrina Jabs, Christophe Becavin, Marie-Anne Nahori, Vincent Guerinau, David Touboul, Amine Ghozlane, Marie-Agnes Dillies, Pascale Cossart

Thermosensitive alternative splicing senses and mediates temperature adaptation in Drosophila. Naveh Evantal, Ane Martin Anduaga, Osnat Bartok, Ines Lucia Patop, Ron Weiss, Sebastian Kadener

The whole genome sequence and mRNA transcriptome of the tropical cyclopoid copepod Apocyclops royi. Tue Sparholt Jørgensen, Bolette Lykke Holm Nielsen, Bent Petersen, Patrick Denis Browne, Benni Winding Hansen, Lars Hestbjerg Hansen

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