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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