RNA preprints: Week 46 edition

Methylation guide RNA evolution in archaea: structure, function, and genomic organization of 110 C/D box sRNA families across six Pyrobaculum species. Lauren M Lui, Andrew V Uzilov, David L Bernick, Andrea Corredor, Todd M Lowe, Patrick P Dennis

Determinants of target prioritization and regulatory hierarchy for the bacterial small RNA SgrS. Maksym Bobrovskyy, Jane Frandsen, Jichuan Zhang, Anustup Poddar, Muhammad S. Azam, Tina M. Henkin, Taekjip Ha, Carin K Vanderpool

Transcription start site analysis reveals widespread divergent transcription in D. melanogaster and core promoter encoded enhancer activities. Sarah Rennie, Maria Dalby, Marta Lloret-Llinares, Stylianos Bakoulis, Christian Dalager Vaagenso, Torben Heick Jensen, Robin Andersson

Synaptic m6A Epitranscriptome Reveals Functional Partitioning of Localized Transcripts for Dynamic Tripartite Synapse Modulation. Daria Merkurjev, Wan-Ting Hong, Kei Iida, Belinda Goldie, Hitoshi Yamaguti, Ikumi Oomoto, Takayuki Ohara, Shin-ya Kawaguchi, Tomoo Hirano, Kelsey C Martin, Matteo Pellegrini, Dan O Wang

Cross-Site Comparison of Ribosomal Depletion Kits for Illumina RNAseq Library Construction. Zachary T Herbert, Jamie P Kershner, Vincent L Butty, Jyothi Thimmapuram, Sulbha Choudhari, Yuriy O Alekseyev, Jun Fan, Jessica W Podnar, Edward Wilcox, Jenny Gipson, Allison Gillaspy, Kristen Jepsen, Sandra Splinter BonDurant, Krystalynne Morris, Maura Berkeley, Ashley LeClerc, Stephen D. Simpson, Gary Sommerville, Leslie Grimmett, Marie Adams, Stuart S. Levine

Antisense lncRNAs expression correlates with attenuation of highly transcribed genes in fission yeast. Maxime Wery, Camille Gautier, Marc Descrimes, Mayuko Yoda, Valerie Migeot, Damien Hermand, Antonin Morillon

miRAW: A deep learning approach to predict miRNA targets by analyzing whole miRNA transcripts. Albert Pla Planas, Xiangfu Zhong, Simon Rayn

Differential gene expression analysis tools exhibit substandard performance for long non-coding RNA–sequencing data. Alemu Takele Assefa, Katrijn De Paepe, Celine Everaert, Pieter Mestdagh, Olivier Thas, Jo Vandesompele

Embryonic circular RNAs at tandem duplicated genes in zebrafish present new paradigm in gene expression. Vanessa Chong-Morrison, Tatjana Sauka-Spengler

Nuclear Abl Drives miR-34c Transfer by Extracellular Vesicles to Induce Radiation Bystander Effects. Shubhra Rastogi, Amini Hwang, Josolyn Chan, Jean YJ Wang

Optimizing gene expression by adapting splicing. Idan Frumkin, Ido Yofe, Raz Bar-Ziv, Yoav Voichek, Yitzhak Pilpel

The necessary emergence of structural complexity in self-replicating RNA populations. Carlos G. Oliver, Vladimir Reinharz, Jérôme Waldispühl

Histone deacetylation promotes transcriptional silencing at facultative heterochromatin. Beth Rosina Watts, Sina Wittmann, Maxime Wery, Camille Gautier, Krzysztof Kus, Dong-Hyuk Heo, Cornelia Kilchert, Antonin Morillon, Lidia Vasiljeva

Smg5 is required for multiple nonsense-mediated mRNA decay pathways in Drosophila. Jonathan O. Nelson, Dominique Foerster, Kimberly Frizzell, Stefan Luschnig, Mark M. Metzstein

Evidence of non-tandemly repeated rDNAs and their intragenomic heterogeneity in Rhizophagus irregularis. Taro Maeda, Yuuki Kobayashi, Hiromu Kameoka, Nao Okuma, Naoya Takeda, Katsushi Yamaguchi, Takahiro Bino, Shuji Shigenobu, Masayoshi Kawaguchi

A Deep Recurrent Neural Network Discovers Complex Biological Rules to Decipher RNA Protein-Coding Potential. Steven T Hill, Rachael C Kuintzle, Amy Teegarden, Erich Merrill III, Padideh Danaee, David A Hendrix

Transcriptional landscape and regulatory roles of small non-coding RNAs in the oxidative stress response of the haloarchaeon Haloferax volcanii. Diego R. Gelsinger, Jocelyne DiRuggiero

MicroRNA-21 Regulates Metabolic Adaptation of Pathogenic TH17 cells and Controls Autoimmune Inflammation. Xiang Yu, Li Wang, Chao Yao, Rong Qiu, Yang Ge Cui, Dai Dai, Jun Deng, Guo Jun Hou, Yan Wang, Jie Qian, Yang Ye Ou, Yu Ting Qin, Hai Bo Zhou, You Cun Qian, Yuan Jia Tang, Nan Shen

Comparing miRNA structure of mirtrons and non-mirtrons. Igor I. Titov, Pavel S. Vorozheykin

LINE-2 transposable elements shape post-transcriptional gene regulation in the human brain. Rebecca Petri, Per Ludvik Brattås, Marie E. Jönsson, Karolina Pircs, Johan Bengzon, Johan Jakobsson

The role of m6A-RNA methylation in stress response regulation. Mareen Engel, Simone Roeh, Carola Eggert, Paul M. Kaplick, Lisa Tietze, Janine Arloth, Peter Weber, Monika Rex-Haffner, Mira Jakovcevski, Manfred Uhr, Matthias Eder, Carsten T. Wotjak, Mathias V. Schmidt, Jan M. Deussing, Elisabeth B. Binder, Alon Chen

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That’s a wrap! Did we miss something? Let us know!

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