RNA preprints: W8/2019

Precise removal of Calm1 long 3′ UTR isoform by CRISPR-Cas9 genome editing impairs dorsal root ganglion development in mice. Hannah N Gruner, Bongmin Bae, Maebh Lynch, Daniel Oliver, Kevin So, Grant S Mastick, Wei Yan, Pedro Miura

Phospho-sRNA-seq reveals extracellular mRNA/lncRNA fragments as potential biomarkers in human plasma. Maria D. Giraldez, Ryan M. Spengler, Alton Etheridge, Annika Jane Goicochea, Missy Tuck, Sung Won Choi, David J. Galas, Muneesh Tewari

Local-to-global signal transduction at the core of the Mn2+ sensing riboswitch. Krishna C Suddala, Ian R Price, Michal Janeček, Petra Kührová, Shiba Dandpat, Jiří Šponer, Pavel Banáš, Ailong Ke, Nils G Walter

Comprehensive Assessment of Sequence and Expression of Circular-RNAs in Progenitor Cell Types of the Developing Mammalian Cortex. Martina Dori, Leila Haj Abdullah Alieh, Daniel Cavalli, Simone Massalini, Mathias Lesche, Andreas Dahl, Federico Calegari

Neutrophil-extracellular trap-associated RNA (naRNA) and LL37 enable self-amplifying inflammation in psoriasis. Franziska Herster, Zsofia Bittner, Sabine Dickhoefer, David Eisel, Tatjana Eigenbrod, Thomas Knorpp, Nicole Schneiderhan-Marra, Markus W Loeffler, Hubert Kalbacher, Dominik Hartl, Lukas Freund, Knut Schaekel, Martin Heiser, Kamran Ghoreschi, Alexander N. R. Weber

Conditional Prediction of RNA Secondary Structure Using NMR Chemical Shifts. Kexin Zhang, Aaron Terrence Frank

dbMTS: a comprehensive database of putative human microRNA target site SNVs and their functional predictions. Chang Li, Michael D. Swartz, Bing Yu, Xiaoming Liu

Single molecule real time (SMRT) full length RNA-sequencing reveals novel and distinct mRNA isoforms in human bone marrow cell subpopulations. Anne Deslattes Mays, Marcel O Schmidt, Garrett Graham, Elizabeth Tseng, Primo Baybayan, Robert Sebra, Sanda Miloslav, Jean-Baptiste Mazarati, Anna T Riegel, Anton Wellstein

Transcriptome stability profiling identifies novel and functional MIRNA targets in melanoma cells. Piyush Joshi, Tatsuya Seki, Shinobu Kitamura, Andrea Bergano, Bongyong Lee, Ranjan J Perera

MicroRNA-mediated control of developmental lymphangiogenesis. Hyun Min Jung, Ciara Hu, Alexandra M Fister, Andrew E Davis, Daniel Castranova, Van N Pham, Lisa M Price, Brant M Weinstein

Automated analysis of small RNA datasets with RAPID. Sivarajan Karunanithi, Martin Simon, Marcel H Schulz

Empowering the annotation and discovery of structured RNAs with scalable and accessible integrative clustering. Milad Miladi, Eteri Sokhoyan, Torsten Houwaart, Steffen Heyne, Fabrizio Costa, Bjoern Gruening, Rolf Backofen

ACValidator: a novel assembly-based approach for in silico validation of circular RNAs. Shobana Sekar, Philipp Geiger, Jonathan Adkins, Geidy Serrano, Thomas Beach, Winnie S Liang

mRNA adenosine methylase (MTA) deposits m6A on pri-miRNAs to modulate miRNA biogenesis in Arabidopsis thaliana. Susheel Sagar Bhat, Dawid Bielewicz, Natalia Grzelak, Tomasz Gulanicz, Zsuzsanna Bodi, Lukasz Szewc, Matuesz Bajczyk, Jakub Dolata, Dariusz J. Smolinski, Rupert G. Fray, Artur Jarmolowski, Zofia Szweykowska-Kulinska

Dengue and Zika virus 5’-UTRs harbor IRES functions. Yutong Song, JoAnn Mugavero, Charles B Stauft, Eckard Wimmer

Single mRNP analysis by super-resolution microscopy and fluorescence correlation spectroscopy reveals that small mRNP granules represent mRNA singletons. Angels Mateu-Regue, Jan Christiansen, Frederik Otzen Bagger, Christian Hellriegel, Finn Cilius Nielsen

Systematic identification of circular RNAs and corresponding regulatory networks unveil their potential roles in the midgut of Apis cerana cerana workers. Dafu Chen, Huazhi Chen, Yu Du, Sihai Geng, Cuiling Xiong, Yanzhen Zheng, Chunsheng Hou, Qingyun Diao, Rui Guo

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

Programmable DNA cleavage by Ago nucleases from mesophilic bacteria Clostridium butyricum and Limnothrix rosea. Anton Kuzmenko, Denis Yudin, Sergei Ryazansky, Andrey Kulbachinskiy, Alexei Aravin

Tissue-specific mouse mRNA isoform networks. Gaurav Kandoi, Julie Dickerson

ANP32A and ANP32B are key factors in the Rev dependent CRM1 pathway for nuclear export of HIV-1 unspliced mRNA. Yujie Wang, Haili Zhang, Lei Na, Cheng Du, Zhenyu Zhang, Yonghui Zheng, Xiaojun Wang

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