{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,29]],"date-time":"2026-03-29T13:09:16Z","timestamp":1774789756987,"version":"3.50.1"},"reference-count":49,"publisher":"Public Library of Science (PLoS)","issue":"8","license":[{"start":{"date-parts":[[2020,8,11]],"date-time":"2020-08-11T00:00:00Z","timestamp":1597104000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"National Institute of Biomedical Genomics","award":["Intramural"],"award-info":[{"award-number":["Intramural"]}]}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"DOI":"10.1371\/journal.pone.0237559","type":"journal-article","created":{"date-parts":[[2020,8,11]],"date-time":"2020-08-11T15:19:25Z","timestamp":1597159165000},"page":"e0237559","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":29,"title":["Global cataloguing of variations in untranslated regions of viral genome and prediction of key host RNA binding protein-microRNA interactions modulating genome stability in SARS-CoV-2"],"prefix":"10.1371","volume":"15","author":[{"given":"Moumita","family":"Mukherjee","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4663-6162","authenticated-orcid":true,"given":"Srikanta","family":"Goswami","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2020,8,11]]},"reference":[{"issue":"4","key":"pone.0237559.ref001","doi-asserted-by":"crossref","first-page":"407","DOI":"10.1016\/j.dsx.2020.04.020","article-title":"Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2): An overview of viral structure and host response","volume":"14","author":"I Astuti","year":"2020","journal-title":"Diabetes & metabolic syndrome"},{"key":"pone.0237559.ref002","author":"F Begum","year":"2020","journal-title":"Specific mutations in SARS-CoV2 RNA dependent RNA polymerase and helicase alter protein structure, dynamics and thus function: Effect on viral RNA replication"},{"key":"pone.0237559.ref003","author":"B Bornali","year":"2020","journal-title":"Phylogenetic clustering of the Indian SARS-CoV-2 genomes reveals the presence of distinct clades of viral haplotypes among states"},{"issue":"17","key":"pone.0237559.ref004","doi-asserted-by":"crossref","first-page":"9241","DOI":"10.1073\/pnas.2004999117","article-title":"Phylogenetic network analysis of SARS-CoV-2 genomes","volume":"117","author":"P Forster","year":"2020","journal-title":"Proceedings of the National Academy of Sciences of the United States of America"},{"issue":"14","key":"pone.0237559.ref005","doi-asserted-by":"crossref","first-page":"5626","DOI":"10.1073\/pnas.86.14.5626","article-title":"Coronavirus subgenomic minus-strand RNAs and the potential for mRNA replicons","volume":"86","author":"PB Sethna","year":"1989","journal-title":"Proceedings of the National Academy of Sciences of the United States of America"},{"issue":"10","key":"pone.0237559.ref006","doi-asserted-by":"crossref","first-page":"8349","DOI":"10.1128\/JVI.73.10.8349-8355.1999","article-title":"A phylogenetically conserved hairpin-type 3' untranslated region pseudoknot functions in coronavirus RNA replication","volume":"73","author":"GD Williams","year":"1999","journal-title":"Journal of virology"},{"key":"pone.0237559.ref007","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1016\/j.virol.2017.11.025","article-title":"Structural and functional conservation of cis-acting RNA elements in coronavirus 5'-terminal genome regions","volume":"517","author":"R Madhugiri","year":"2018","journal-title":"Virology"},{"key":"pone.0237559.ref008","doi-asserted-by":"crossref","first-page":"120","DOI":"10.1016\/j.virusres.2015.02.025","volume":"206","author":"D Yang","year":"2015","journal-title":"Virus research"},{"issue":"11","key":"pone.0237559.ref009","doi-asserted-by":"crossref","first-page":"5065","DOI":"10.1093\/nar\/gks165","article-title":"Binding of the 5'-untranslated region of coronavirus RNA to zinc finger CCHC-type and RNA-binding motif 1 enhances viral replication and transcription","volume":"40","author":"YW Tan","year":"2012","journal-title":"Nucleic acids research"},{"issue":"1","key":"pone.0237559.ref010","doi-asserted-by":"crossref","first-page":"76","DOI":"10.1007\/s12038-020-00046-1","article-title":"Mutations in SARS-CoV-2 viral RNA identified in Eastern India: Possible implications for the ongoing outbreak in India and impact on viral structure and host susceptibility","volume":"45","author":"A Maitra","year":"2020","journal-title":"Journal of Biosciences"},{"issue":"4","key":"pone.0237559.ref011","doi-asserted-by":"crossref","first-page":"2903","DOI":"10.3390\/biom5042903","article-title":"Competing Interactions of RNA-Binding Proteins, MicroRNAs, and Their Targets Control Neuronal Development and Function","volume":"5","author":"AS Gardiner","year":"2015","journal-title":"Biomolecules"},{"key":"pone.0237559.ref012","doi-asserted-by":"crossref","first-page":"W361","DOI":"10.1093\/nar\/gku406","article-title":"RBPmap: a web server for mapping binding sites of RNA-binding proteins","volume":"42","author":"I Paz","year":"2014","journal-title":"Nucleic acids research"},{"issue":"6","key":"pone.0237559.ref013","doi-asserted-by":"crossref","first-page":"1203","DOI":"10.1016\/j.cell.2006.07.031","article-title":"A pattern-based method for the identification of MicroRNA binding sites and their corresponding heteroduplexes","volume":"126","author":"KC Miranda","year":"2006","journal-title":"Cell"},{"issue":"D1","key":"pone.0237559.ref014","doi-asserted-by":"crossref","first-page":"D155","DOI":"10.1093\/nar\/gky1141","article-title":"miRBase: from microRNA sequences to function","volume":"47","author":"A Kozomara","year":"2019","journal-title":"Nucleic acids research"},{"issue":"W1","key":"pone.0237559.ref015","doi-asserted-by":"crossref","first-page":"W98","DOI":"10.1093\/nar\/gkx247","article-title":"GEPIA: a web server for cancer and normal gene expression profiling and interactive analyses","volume":"45","author":"Z Tang","year":"2017","journal-title":"Nucleic acids research"},{"key":"pone.0237559.ref016","article-title":"Genotyping coronavirus SARS-CoV-2: methods and implications","author":"C Yin","year":"2020","journal-title":"Genomics"},{"key":"pone.0237559.ref017","article-title":"Genome-wide mapping of therapeutically-relevant SARS-CoV-2 RNA structures","author":"M I","year":"2020","journal-title":"BioRxiv"},{"key":"pone.0237559.ref018","article-title":"De novo 3D models of SARS-CoV-2 RNA elements and small-molecule-binding RNAs to guide drug discovery","author":"R R","year":"2020","journal-title":"BioRxiv"},{"issue":"4","key":"pone.0237559.ref019","doi-asserted-by":"crossref","first-page":"140","DOI":"10.4161\/rna.3.4.4076","article-title":"Viruses: overturning RNA turnover","volume":"3","author":"KJ Sokoloski","year":"2006","journal-title":"RNA biology"},{"issue":"7","key":"pone.0237559.ref020","doi-asserted-by":"crossref","first-page":"4712","DOI":"10.1093\/nar\/gkt1407","article-title":"The crystal structure of TDP-43 RRM1-DNA complex reveals the specific recognition for UG- and TG-rich nucleic acids","volume":"42","author":"PH Kuo","year":"2014","journal-title":"Nucleic acids research"},{"issue":"3","key":"pone.0237559.ref021","doi-asserted-by":"crossref","first-page":"82","DOI":"10.1007\/s12032-015-0544-8","article-title":"CUGBP1 promotes cell proliferation and suppresses apoptosis via down-regulating C\/EBPalpha in human non-small cell lung cancers","volume":"32","author":"H Lu","year":"2015","journal-title":"Med Oncol"},{"issue":"6","key":"pone.0237559.ref022","doi-asserted-by":"crossref","first-page":"6933","DOI":"10.1096\/fj.201802547R","article-title":"miR-574-5p as RNA decoy for CUGBP1 stimulates human lung tumor growth by mPGES-1 induction","volume":"33","author":"MJ Saul","year":"2019","journal-title":"FASEB journal: official publication of the Federation of American Societies for Experimental Biology"},{"issue":"6","key":"pone.0237559.ref023","doi-asserted-by":"crossref","first-page":"4583","DOI":"10.1007\/s13277-015-3103-1","article-title":"Overexpression of CUGBP1 is associated with the progression of non-small cell lung cancer","volume":"36","author":"C Gao","year":"2015","journal-title":"Tumour biology: the journal of the International Society for Oncodevelopmental Biology and Medicine"},{"key":"pone.0237559.ref024","doi-asserted-by":"crossref","first-page":"13498","DOI":"10.1038\/ncomms13498","article-title":"CUG-binding protein 1 regulates HSC activation and liver fibrogenesis","volume":"7","author":"X Wu","year":"2016","journal-title":"Nature communications"},{"key":"pone.0237559.ref025","first-page":"42","article-title":"Exercise, skeletal muscle and inflammation: ARE-binding proteins as key regulators in inflammatory and adaptive networks","volume":"21","author":"T Beiter","year":"2015","journal-title":"Exercise immunology review"},{"issue":"10","key":"pone.0237559.ref026","doi-asserted-by":"crossref","first-page":"e0140248","DOI":"10.1371\/journal.pone.0140248","article-title":"Inflammation Induces TDP-43 Mislocalization and Aggregation","volume":"10","author":"AS Correia","year":"2015","journal-title":"PloS one"},{"issue":"12","key":"pone.0237559.ref027","doi-asserted-by":"crossref","first-page":"2087","DOI":"10.1038\/cdd.2015.58","article-title":"Cytoplasmic translocation, aggregation, and cleavage of TDP-43 by enteroviral proteases modulate viral pathogenesis","volume":"22","author":"G Fung","year":"2015","journal-title":"Cell death and differentiation"},{"issue":"2","key":"pone.0237559.ref028","doi-asserted-by":"crossref","first-page":"459","DOI":"10.1007\/s12032-014-0459-9","article-title":"RBMS3 is a tumor suppressor gene that acts as a favorable prognostic marker in lung squamous cell carcinoma","volume":"32","author":"YN Liang","year":"2015","journal-title":"Med Oncol"},{"issue":"3","key":"pone.0237559.ref029","doi-asserted-by":"crossref","first-page":"585","DOI":"10.1016\/j.jmb.2007.06.006","article-title":"RNA-binding protein RBMS3 is expressed in activated hepatic stellate cells and liver fibrosis and increases expression of transcription factor Prx1","volume":"371","author":"D Fritz","year":"2007","journal-title":"Journal of molecular biology"},{"issue":"2","key":"pone.0237559.ref030","doi-asserted-by":"crossref","first-page":"791","DOI":"10.1016\/j.gene.2015.11.009","article-title":"Knockdown of HNRNPA1 inhibits lung adenocarcinoma cell proliferation through cell cycle arrest at G0\/G1 phase","volume":"576","author":"X Liu","year":"2016","journal-title":"Gene"},{"issue":"3","key":"pone.0237559.ref031","first-page":"3746","article-title":"Prognostic value of heterogeneous ribonucleoprotein A1 expression and inflammatory indicators for patients with surgically resected hepatocellular carcinoma: Perspectives from a high occurrence area of hepatocellular carcinoma in China","volume":"16","author":"R Ke","year":"2018","journal-title":"Oncology letters"},{"issue":"5","key":"pone.0237559.ref032","doi-asserted-by":"crossref","first-page":"e1543","DOI":"10.1002\/wrna.1543","article-title":"Viral modulation of cellular RNA alternative splicing: A new key player in virus-host interactions?","volume":"10","author":"S Boudreault","year":"2019","journal-title":"Wiley interdisciplinary reviews RNA"},{"issue":"9","key":"pone.0237559.ref033","doi-asserted-by":"crossref","first-page":"e0161914","DOI":"10.1371\/journal.pone.0161914","article-title":"Global Profiling of the Cellular Alternative RNA Splicing Landscape during Virus-Host Interactions","volume":"11","author":"S Boudreault","year":"2016","journal-title":"PloS one"},{"issue":"1","key":"pone.0237559.ref034","doi-asserted-by":"crossref","first-page":"2295","DOI":"10.1038\/s41598-017-02473-x","article-title":"TRPV4-dependent induction of a novel mammalian cold-inducible protein SRSF5 as well as CIRP and RBM3.","volume":"7","author":"T Fujita","year":"2017","journal-title":"Scientific reports"},{"key":"pone.0237559.ref035","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1016\/j.lungcan.2016.05.018","article-title":"SRSF5: a novel marker for small-cell lung cancer and pleural metastatic cancer","volume":"99","author":"HR Kim","year":"2016","journal-title":"Lung Cancer"},{"issue":"1","key":"pone.0237559.ref036","doi-asserted-by":"crossref","first-page":"2464","DOI":"10.1038\/s41467-018-04815-3","article-title":"Mutually exclusive acetylation and ubiquitylation of the splicing factor SRSF5 control tumor growth","volume":"9","author":"Y Chen","year":"2018","journal-title":"Nature communications"},{"issue":"9","key":"pone.0237559.ref037","doi-asserted-by":"crossref","first-page":"6615","DOI":"10.1002\/jcp.26274","article-title":"miR-34b-5p inhibition attenuates lung inflammation and apoptosis in an LPS-induced acute lung injury mouse model by targeting progranulin","volume":"233","author":"W Xie","year":"2018","journal-title":"Journal of cellular physiology"},{"issue":"5","key":"pone.0237559.ref038","first-page":"2273","article-title":"MiR-34b-5p knockdown attenuates bleomycin-induced pulmonary fibrosis by targeting tissue inhibitor of metalloproteinase 3 (TIMP3)","volume":"23","author":"RP Hu","year":"2019","journal-title":"European review for medical and pharmacological sciences"},{"key":"pone.0237559.ref039","doi-asserted-by":"crossref","first-page":"1170","DOI":"10.1016\/j.biopha.2017.11.105","article-title":"MiR-9-5p promotes cell growth and metastasis in non-small cell lung cancer through the repression of TGFBR2","volume":"96","author":"G Li","year":"2017","journal-title":"Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie"},{"issue":"3","key":"pone.0237559.ref040","first-page":"845","article-title":"miR36645P suppresses the proliferation and metastasis of gastric cancer by attenuating the NFkappaB signaling pathway through targeting MTDH","volume":"54","author":"Y Jiao","year":"2019","journal-title":"International journal of oncology"},{"issue":"9","key":"pone.0237559.ref041","doi-asserted-by":"crossref","first-page":"e23003","DOI":"10.1002\/jcla.23003","article-title":"Analysis of differential expression profile of miRNA in peripheral blood of patients with lung cancer","volume":"33","author":"Q He","year":"2019","journal-title":"Journal of clinical laboratory analysis"},{"issue":"1","key":"pone.0237559.ref042","doi-asserted-by":"crossref","first-page":"341","DOI":"10.1093\/nar\/gky972","article-title":"TDP-43 enhances translation of specific mRNAs linked to neurodegenerative disease","volume":"47","author":"N Neelagandan","year":"2019","journal-title":"Nucleic acids research"},{"issue":"6","key":"pone.0237559.ref043","doi-asserted-by":"crossref","first-page":"e1498","DOI":"10.1002\/wrna.1498","article-title":"Unconventional RNA-binding proteins step into the virus-host battlefront","volume":"9","author":"M Garcia-Moreno","year":"2018","journal-title":"Wiley interdisciplinary reviews RNA"},{"issue":"21","key":"pone.0237559.ref044","doi-asserted-by":"crossref","first-page":"20549","DOI":"10.1074\/jbc.M409563200","article-title":"RNA CUG-binding protein 1 increases translation of 20-kDa isoform of CCAAT\/enhancer-binding protein beta by interacting with the alpha and beta subunits of eukaryotic initiation translation factor 2","volume":"280","author":"NA Timchenko","year":"2005","journal-title":"The Journal of biological chemistry"},{"issue":"1","key":"pone.0237559.ref045","doi-asserted-by":"crossref","first-page":"104","DOI":"10.1002\/wrna.107","article-title":"The importance of CELF control: molecular and biological roles of the CUG-BP, Elav-like family of RNA-binding proteins","volume":"3","author":"T Dasgupta","year":"2012","journal-title":"Wiley interdisciplinary reviews RNA"},{"key":"pone.0237559.ref046","first-page":"95","article-title":"Viral and cellular proteins involved in coronavirus replication","volume":"287","author":"ST Shi","year":"2005","journal-title":"Current topics in microbiology and immunology"},{"issue":"17","key":"pone.0237559.ref047","doi-asserted-by":"crossref","first-page":"4701","DOI":"10.1093\/emboj\/19.17.4701","article-title":"Heterogeneous nuclear ribonucleoprotein A1 regulates RNA synthesis of a cytoplasmic virus","volume":"19","author":"ST Shi","year":"2000","journal-title":"The EMBO journal"},{"issue":"3","key":"pone.0237559.ref048","doi-asserted-by":"crossref","first-page":"e59137","DOI":"10.1371\/journal.pone.0059137","article-title":"Proteasome-mediated proteolysis of SRSF5 splicing factor intriguingly co-occurs with SRSF5 mRNA upregulation during late erythroid differentiation","volume":"8","author":"O Breig","year":"2013","journal-title":"PloS one"},{"issue":"12","key":"pone.0237559.ref049","doi-asserted-by":"crossref","first-page":"e51497","DOI":"10.1371\/journal.pone.0051497","article-title":"Regulation of Mcl-1 by SRSF1 and SRSF5 in cancer cells","volume":"7","author":"HL Gautrey","year":"2012","journal-title":"PloS one"}],"container-title":["PLOS ONE"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0237559","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,10,5]],"date-time":"2023-10-05T12:17:58Z","timestamp":1696508278000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0237559"}},"subtitle":[],"editor":[{"given":"Thomas","family":"Preiss","sequence":"first","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2020,8,11]]},"references-count":49,"journal-issue":{"issue":"8","published-online":{"date-parts":[[2020,8,11]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0237559","relation":{"has-preprint":[{"id-type":"doi","id":"10.1101\/2020.06.09.134585","asserted-by":"object"}]},"ISSN":["1932-6203"],"issn-type":[{"value":"1932-6203","type":"electronic"}],"subject":[],"published":{"date-parts":[[2020,8,11]]}}}