{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,12]],"date-time":"2025-10-12T02:12:27Z","timestamp":1760235147180,"version":"build-2065373602"},"reference-count":76,"publisher":"Elsevier BV","issue":"1","license":[{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2021,12,13]],"date-time":"2021-12-13T00:00:00Z","timestamp":1639353600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100014857","name":"National Natural Science Foundation of China-Guangdong Joint Fund","doi-asserted-by":"publisher","award":["U1501501"],"award-info":[{"award-number":["U1501501"]}],"id":[{"id":"10.13039\/501100014857","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100017131","name":"National Supercomputer Centre in Guangzhou","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100017131","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012226","name":"Fundamental Research Funds for the Central Universities","doi-asserted-by":"publisher","award":["2016YXMS017"],"award-info":[{"award-number":["2016YXMS017"]}],"id":[{"id":"10.13039\/501100012226","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100013804","name":"Fundamental Research Funds for the Central Universities","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100013804","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Genomics"],"published-print":{"date-parts":[[2022,1]]},"DOI":"10.1016\/j.ygeno.2021.12.003","type":"journal-article","created":{"date-parts":[[2021,12,16]],"date-time":"2021-12-16T01:56:08Z","timestamp":1639619768000},"page":"149-160","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":1,"title":["Two novel RNA-binding proteins identification through computational prediction and experimental validation"],"prefix":"10.1016","volume":"114","author":[{"given":"Juan","family":"Xie","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xiaoli","family":"Zhang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jinfang","family":"Zheng","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xu","family":"Hong","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xiaoxue","family":"Tong","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xudong","family":"Liu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yaqiang","family":"Xue","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xuelian","family":"Wang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yi","family":"Zhang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shiyong","family":"Liu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"78","reference":[{"key":"10.1016\/j.ygeno.2021.12.003_bb0005","doi-asserted-by":"crossref","first-page":"880","DOI":"10.1016\/j.molcel.2011.08.022","article-title":"Regulation by small RNAs in bacteria: expanding frontiers","volume":"43","author":"Storz","year":"2011","journal-title":"Mol. Cell"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0010","doi-asserted-by":"crossref","first-page":"674","DOI":"10.1016\/j.molcel.2012.05.021","article-title":"The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts","volume":"46","author":"Baltz","year":"2012","journal-title":"Mol. Cell"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0015","doi-asserted-by":"crossref","first-page":"911","DOI":"10.1016\/j.bbagrm.2017.07.004","article-title":"CELF1 preferentially binds to exon-intron boundary and regulates alternative splicing in HeLa cells","volume":"1860","author":"Xia","year":"2017","journal-title":"Biochim. Biophys. Acta"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0020","doi-asserted-by":"crossref","first-page":"732","DOI":"10.1101\/gr.199935.115","article-title":"Large-scale analysis of genome and transcriptome alterations in multiple tumors unveils novel cancer-relevant splicing networks","volume":"26","author":"Sebestyen","year":"2016","journal-title":"Genome Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0025","doi-asserted-by":"crossref","first-page":"864","DOI":"10.1038\/cr.2015.77","article-title":"Integrative genome-wide analysis reveals HLP1, a novel RNA-binding protein, regulates plant flowering by targeting alternative polyadenylation","volume":"25","author":"Zhang","year":"2015","journal-title":"Cell Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0030","doi-asserted-by":"crossref","first-page":"489","DOI":"10.1038\/nmeth.3840","article-title":"irCLIP platform for efficient characterization of protein-RNA interactions","volume":"13","author":"Zarnegar","year":"2016","journal-title":"Nat. Methods"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0035","doi-asserted-by":"crossref","first-page":"508","DOI":"10.1038\/nmeth.3810","article-title":"Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP)","volume":"13","author":"Van Nostrand","year":"2016","journal-title":"Nat. Methods"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0040","doi-asserted-by":"crossref","first-page":"491","DOI":"10.1038\/nature14280","article-title":"hiCLIP reveals the in vivo atlas of mRNA secondary structures recognized by Staufen 1","volume":"519","author":"Sugimoto","year":"2015","journal-title":"Nature"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0045","doi-asserted-by":"crossref","first-page":"909","DOI":"10.1038\/nsmb.1838","article-title":"iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution","volume":"17","author":"Konig","year":"2010","journal-title":"Nat. Struct. Mol. Biol."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0050","doi-asserted-by":"crossref","first-page":"129","DOI":"10.1016\/j.cell.2010.03.009","article-title":"Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP","volume":"141","author":"Hafner","year":"2010","journal-title":"Cell"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0055","doi-asserted-by":"crossref","first-page":"464","DOI":"10.1038\/nature07488","article-title":"HITS-CLIP yields genome-wide insights into brain alternative RNA processing","volume":"456","author":"Licatalosi","year":"2008","journal-title":"Nature"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0060","doi-asserted-by":"crossref","first-page":"302","DOI":"10.1038\/nprot.2006.47","article-title":"RIP-Chip: the isolation and identification of mRNAs, microRNAs and protein components of ribonucleoprotein complexes from cell extracts","volume":"1","author":"Keene","year":"2006","journal-title":"Nat. Protoc."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0065","doi-asserted-by":"crossref","first-page":"28","DOI":"10.1186\/s13059-016-0878-3","article-title":"Widespread RNA binding by chromatin-associated proteins","volume":"17","author":"David","year":"2016","journal-title":"Genome Biol."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0070","doi-asserted-by":"crossref","first-page":"416","DOI":"10.1016\/j.molcel.2016.09.034","article-title":"High-resolution mapping of RNA-binding regions in the nuclear proteome of embryonic stem cells","volume":"64","author":"He","year":"2016","journal-title":"Mol. Cell"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0075","doi-asserted-by":"crossref","first-page":"E3879","DOI":"10.1073\/pnas.1718406115","article-title":"Transcriptome-wide discovery of coding and noncoding RNA-binding proteins","volume":"115","author":"Huang","year":"2018","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0080","doi-asserted-by":"crossref","first-page":"169","DOI":"10.1038\/s41587-018-0001-2","article-title":"Comprehensive identification of RNA-protein interactions in any organism using orthogonal organic phase separation (OOPS)","volume":"37","author":"Queiroz","year":"2019","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0085","doi-asserted-by":"crossref","first-page":"990","DOI":"10.1038\/s41467-019-08942-3","article-title":"Purification of cross-linked RNA-protein complexes by phenol-toluol extraction","volume":"10","author":"Urdaneta","year":"2019","journal-title":"Nat. Commun."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0090","doi-asserted-by":"crossref","first-page":"391","DOI":"10.1016\/j.cell.2018.11.004","article-title":"The human RNA-binding proteome and its dynamics during translational arrest","volume":"176","author":"Trendel","year":"2019","journal-title":"Cell"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0095","doi-asserted-by":"crossref","first-page":"1142","DOI":"10.1038\/s41467-018-03575-4","article-title":"uvCLAP is a fast and non-radioactive method to identify in vivo targets of RNA-binding proteins","volume":"9","author":"Maticzka","year":"2018","journal-title":"Nat. Commun."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0100","doi-asserted-by":"crossref","first-page":"303","DOI":"10.1002\/jmr.1061","article-title":"SVM based prediction of RNA-binding proteins using binding residues and evolutionary information","volume":"24","author":"Kumar","year":"2011","journal-title":"J. Mol. Recognit."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0105","doi-asserted-by":"crossref","first-page":"854","DOI":"10.1093\/bioinformatics\/btw730","article-title":"RBPPred: predicting RNA-binding proteins from sequence using SVM","volume":"33","author":"Zhang","year":"2017","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0110","doi-asserted-by":"crossref","first-page":"15264","DOI":"10.1038\/s41598-018-33654-x","article-title":"Deep-RBPPred: predicting RNA binding proteins in the proteome scale based on deep learning","volume":"8","author":"Zheng","year":"2018","journal-title":"Sci. Rep."},{"issue":"9","key":"10.1016\/j.ygeno.2021.12.003_bb0115","doi-asserted-by":"crossref","first-page":"4406","DOI":"10.1093\/nar\/gkz203","article-title":"TriPepSVM: de novo prediction of RNA-binding proteins based on short amino acid motifs","volume":"47","author":"Bressin","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0120","doi-asserted-by":"crossref","first-page":"W568","DOI":"10.1093\/nar\/gkw454","article-title":"BindUP: a web server for non-homology-based prediction of DNA and RNA binding proteins","volume":"44","author":"Paz","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0125","doi-asserted-by":"crossref","first-page":"2928","DOI":"10.1093\/bioinformatics\/btt495","article-title":"catRAPID omics: a web server for large-scale prediction of protein-RNA interactions","volume":"29","author":"Agostini","year":"2013","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0130","doi-asserted-by":"crossref","DOI":"10.1093\/nar\/gkx137","article-title":"APRICOT: an integrated computational pipeline for the sequence-based identification and characterization of RNA-binding proteins","volume":"45","author":"Sharan","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0135","doi-asserted-by":"crossref","first-page":"988","DOI":"10.4161\/rna.8.6.17813","article-title":"Highly accurate and high-resolution function prediction of RNA binding proteins by fold recognition and binding affinity prediction","volume":"8","author":"Zhao","year":"2011","journal-title":"RNA Biol."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0140","doi-asserted-by":"crossref","first-page":"119","DOI":"10.1007\/978-1-4939-0366-5_9","article-title":"SPOT-Seq-RNA: predicting protein-RNA complex structure and RNA-binding function by fold recognition and binding affinity prediction","volume":"1137","author":"Yang","year":"2014","journal-title":"Methods Mol. Biol."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0145","doi-asserted-by":"crossref","first-page":"3017","DOI":"10.1093\/nar\/gkq1266","article-title":"Structure-based prediction of RNA-binding domains and RNA-binding sites and application to structural genomics targets","volume":"39","author":"Zhao","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0150","doi-asserted-by":"crossref","first-page":"2080","DOI":"10.1002\/prot.24100","article-title":"A new size-independent score for pairwise protein structure alignment and its application to structure classification and nucleic-acid binding prediction","volume":"80","author":"Yang","year":"2012","journal-title":"Proteins"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0155","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pcbi.1005120","article-title":"Template-based modeling of protein-RNA interactions","volume":"12","author":"Zheng","year":"2016","journal-title":"PLoS Comput. Biol."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0160","doi-asserted-by":"crossref","first-page":"276","DOI":"10.1186\/s12864-019-5631-3","article-title":"RMalign: an RNA structural alignment tool based on a size independent scoring function","volume":"20","author":"Zheng","year":"2019","journal-title":"BMC Genomics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0165","doi-asserted-by":"crossref","first-page":"282","DOI":"10.1016\/j.molcel.2016.09.003","article-title":"SONAR discovers RNA-binding proteins from analysis of large-scale protein-protein Interactomes","volume":"64","author":"Brannan","year":"2016","journal-title":"Mol. Cell"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0170","doi-asserted-by":"crossref","first-page":"3421","DOI":"10.1172\/JCI94233","article-title":"The FOXN3-NEAT1-SIN3A repressor complex promotes progression of hormonally responsive breast cancer","volume":"127","author":"Li","year":"2017","journal-title":"J. Clin. Invest."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0175","doi-asserted-by":"crossref","DOI":"10.1371\/journal.ppat.1008740","article-title":"A-to-I RNA editing in bacteria increases pathogenicity and tolerance to oxidative stress","volume":"16","author":"Nie","year":"2020","journal-title":"PLoS Pathog."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0180","doi-asserted-by":"crossref","first-page":"13424","DOI":"10.1038\/ncomms13424","article-title":"De-novo protein function prediction using DNA binding and RNA binding proteins as a test case","volume":"7","author":"Peled","year":"2016","journal-title":"Nat. Commun."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0185","doi-asserted-by":"crossref","first-page":"2699","DOI":"10.1093\/nar\/gky092","article-title":"UniProt: the universal protein knowledgebase","volume":"46","author":"T. UniProt Consortium","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0190","doi-asserted-by":"crossref","first-page":"1623","DOI":"10.1083\/jcb.110.5.1623","article-title":"Identification of a novel nucleotide-sensitive microtubule-binding protein in HeLa cells","volume":"110","author":"Rickard","year":"1990","journal-title":"J. Cell Biol."},{"issue":"Pt 7","key":"10.1016\/j.ygeno.2021.12.003_bb0195","doi-asserted-by":"crossref","first-page":"1909","DOI":"10.1242\/jcs.107.7.1909","article-title":"Molecular characterization of two functional domains of CLIP-170 in vivo","volume":"107","author":"Pierre","year":"1994","journal-title":"J. Cell Sci."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0200","doi-asserted-by":"crossref","first-page":"35","DOI":"10.1016\/S0167-4889(98)00096-2","article-title":"Identification and expression of two novel CLIP-170\/Restin isoforms expressed predominantly in muscle","volume":"1405","author":"Griparic","year":"1998","journal-title":"Biochim. Biophys. Acta"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0205","doi-asserted-by":"crossref","first-page":"8715","DOI":"10.1074\/jbc.AAC119.009250","article-title":"Long noncoding RNA ANRIL regulates endothelial cell activities associated with coronary artery disease by up-regulating CLIP1, EZR, and LYVE1 genes (vol 294, pg 3881, 2019)","volume":"294","author":"Cho","year":"2019","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0210","doi-asserted-by":"crossref","first-page":"919","DOI":"10.1016\/0092-8674(87)90579-4","article-title":"Dystrophin: the protein product of the Duchenne muscular dystrophy locus","volume":"51","author":"Hoffman","year":"1987","journal-title":"Cell"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0215","doi-asserted-by":"crossref","first-page":"291","DOI":"10.1152\/physrev.00028.2001","article-title":"Function and genetics of dystrophin and dystrophin-related proteins in muscle","volume":"82","author":"Blake","year":"2002","journal-title":"Physiol. Rev."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0220","doi-asserted-by":"crossref","first-page":"16456","DOI":"10.1073\/pnas.1910456117","article-title":"Premature termination codons in the DMD gene cause reduced local mRNA synthesis","volume":"117","author":"Garcia-Rodriguez","year":"2020","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0225","doi-asserted-by":"crossref","first-page":"W556","DOI":"10.1093\/nar\/gkz430","article-title":"GEPIA2: an enhanced web server for large-scale expression profiling and interactive analysis","volume":"47","author":"Tang","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0230","doi-asserted-by":"crossref","first-page":"R36","DOI":"10.1186\/gb-2013-14-4-r36","article-title":"TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions","volume":"14","author":"Kim","year":"2013","journal-title":"Genome Biol."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0235","doi-asserted-by":"crossref","first-page":"166","DOI":"10.1093\/bioinformatics\/btu638","article-title":"HTSeq--a Python framework to work with high-throughput sequencing data","volume":"31","author":"Anders","year":"2015","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0240","doi-asserted-by":"crossref","first-page":"3013","DOI":"10.1093\/bioinformatics\/bts569","article-title":"Site identification in high-throughput RNA-protein interaction data","volume":"28","author":"Uren","year":"2012","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0245","doi-asserted-by":"crossref","first-page":"607","DOI":"10.1038\/nbt.1873","article-title":"Mapping in vivo protein-RNA interactions at single-nucleotide resolution from HITS-CLIP data","volume":"29","author":"Zhang","year":"2011","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0250","doi-asserted-by":"crossref","first-page":"843","DOI":"10.1093\/bioinformatics\/btw723","article-title":"Hum-mPLoc 3.0: prediction enhancement of human protein subcellular localization through modeling the hidden correlations of gene ontology and functional domain features","volume":"33","author":"Zhou","year":"2017","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0255","doi-asserted-by":"crossref","first-page":"1616","DOI":"10.1101\/gr.134445.111","article-title":"Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs","volume":"22","author":"Tilgner","year":"2012","journal-title":"Genome Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0260","doi-asserted-by":"crossref","first-page":"310","DOI":"10.1016\/j.molcel.2019.04.034","article-title":"Co-transcriptional loading of RNA export factors shapes the human transcriptome","volume":"75","author":"Viphakone","year":"2019","journal-title":"Mol. Cell"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0265","doi-asserted-by":"crossref","first-page":"576","DOI":"10.1016\/j.molcel.2010.05.004","article-title":"Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities","volume":"38","author":"Heinz","year":"2010","journal-title":"Mol. Cell"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0270","doi-asserted-by":"crossref","first-page":"9064","DOI":"10.1016\/S0021-9258(18)34243-1","article-title":"Evolution and diversity of the crystallins. Nucleotide sequence of a beta-crystallin mRNA from the mouse lens","volume":"257","author":"Inana","year":"1982","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0275","first-page":"1014","article-title":"Global regulation of alternative RNA splicing by the SR-rich protein RBM39","volume":"2016","author":"Mai","year":"1859","journal-title":"Biochim. Biophys. Acta"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0280","doi-asserted-by":"crossref","first-page":"539","DOI":"10.1186\/1471-2164-15-539","article-title":"ChIPseek, a web-based analysis tool for ChIP data","volume":"15","author":"Chen","year":"2014","journal-title":"BMC Genomics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0285","doi-asserted-by":"crossref","first-page":"841","DOI":"10.1093\/bioinformatics\/btq033","article-title":"BEDTools: a flexible suite of utilities for comparing genomic features","volume":"26","author":"Quinlan","year":"2010","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0290","doi-asserted-by":"crossref","first-page":"D203","DOI":"10.1093\/nar\/gky830","article-title":"POSTAR2: deciphering the post-transcriptional regulatory logics","volume":"47","author":"Zhu","year":"2019","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0295","doi-asserted-by":"crossref","first-page":"D862","DOI":"10.1093\/nar\/gkv1222","article-title":"ClinVar: public archive of interpretations of clinically relevant variants","volume":"44","author":"Landrum","year":"2016","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0300","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0097725","article-title":"RNABindRPlus: a predictor that combines machine learning and sequence homology-based methods to improve the reliability of predicted RNA-binding residues in proteins","volume":"9","author":"Walia","year":"2014","journal-title":"PLoS One"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0305","doi-asserted-by":"crossref","first-page":"pl1","DOI":"10.1126\/scisignal.2004088","article-title":"Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal","volume":"6","author":"Gao","year":"2013","journal-title":"Sci. Signal."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0310","doi-asserted-by":"crossref","first-page":"178","DOI":"10.1093\/bib\/bbs017","article-title":"Integrative genomics viewer (IGV): high-performance genomics data visualization and exploration","volume":"14","author":"Thorvaldsdottir","year":"2013","journal-title":"Brief. Bioinform."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0315","doi-asserted-by":"crossref","first-page":"416","DOI":"10.1016\/j.tig.2008.05.004","article-title":"RNA-binding proteins in human genetic disease","volume":"24","author":"Lukong","year":"2008","journal-title":"Trends Genet."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0320","doi-asserted-by":"crossref","first-page":"696","DOI":"10.1016\/j.molcel.2016.06.029","article-title":"Comprehensive identification of RNA-binding domains in human cells","volume":"63","author":"Castello","year":"2016","journal-title":"Mol. Cell"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0325","doi-asserted-by":"crossref","first-page":"2302","DOI":"10.1093\/nar\/gki524","article-title":"TM-align: a protein structure alignment algorithm based on the TM-score","volume":"33","author":"Zhang","year":"2005","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0330","doi-asserted-by":"crossref","first-page":"235","DOI":"10.1093\/nar\/28.1.235","article-title":"The Protein Data Bank","volume":"28","author":"Berman","year":"2000","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0335","doi-asserted-by":"crossref","first-page":"D336","DOI":"10.1093\/nar\/gkt1144","article-title":"ModBase, a database of annotated comparative protein structure models and associated resources","volume":"42","author":"Pieper","year":"2014","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0340","doi-asserted-by":"crossref","first-page":"7367","DOI":"10.1038\/ncomms8367","article-title":"RC3H1 post-transcriptionally regulates A20 mRNA and modulates the activity of the IKK\/NF-kappaB pathway","volume":"6","author":"Murakawa","year":"2015","journal-title":"Nat. Commun."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0345","doi-asserted-by":"crossref","first-page":"1122","DOI":"10.1038\/nsmb.2638","article-title":"The RNA-binding protein repertoire of embryonic stem cells","volume":"20","author":"Kwon","year":"2013","journal-title":"Nat. Struct. Mol. Biol."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0350","doi-asserted-by":"crossref","first-page":"3359","DOI":"10.1093\/bioinformatics\/btv362","article-title":"IBS: an illustrator for the presentation and visualization of biological sequences","volume":"31","author":"Liu","year":"2015","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0355","doi-asserted-by":"crossref","DOI":"10.1186\/s12885-019-5671-8","article-title":"CRKL regulates alternative splicing of cancer-related genes in cervical cancer samples and HeLa cell","volume":"19","author":"Song","year":"2019","journal-title":"BMC Cancer"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0360","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1016\/j.molimm.2020.02.004","article-title":"Tristetraprolin-RNA interaction map reveals a novel TTP-RelB regulatory network for innate immunity gene expression","volume":"121","author":"Tu","year":"2020","journal-title":"Mol. Immunol."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0365","doi-asserted-by":"crossref","first-page":"2987","DOI":"10.1093\/bioinformatics\/btr509","article-title":"A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data","volume":"27","author":"Li","year":"2011","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0370","doi-asserted-by":"crossref","first-page":"566","DOI":"10.1093\/bioinformatics\/btw653","article-title":"CLIP tool kit (CTK): a flexible and robust pipeline to analyze CLIP sequencing data","volume":"33","author":"Shah","year":"2017","journal-title":"Bioinformatics"},{"key":"10.1016\/j.ygeno.2021.12.003_bb0375","doi-asserted-by":"crossref","first-page":"263","DOI":"10.1038\/nprot.2014.012","article-title":"Mapping Argonaute and conventional RNA-binding protein interactions with RNA at single-nucleotide resolution using HITS-CLIP and CIMS analysis","volume":"9","author":"Moore","year":"2014","journal-title":"Nat. Protoc."},{"key":"10.1016\/j.ygeno.2021.12.003_bb0380","doi-asserted-by":"crossref","first-page":"W317","DOI":"10.1093\/nar\/gkab447","article-title":"KOBAS-i: intelligent prioritization and exploratory visualization of biological functions for gene enrichment analysis","volume":"49","author":"Bu","year":"2021","journal-title":"Nucleic Acids Res."}],"container-title":["Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0888754321004298?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0888754321004298?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,10,11]],"date-time":"2025-10-11T06:32:33Z","timestamp":1760164353000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0888754321004298"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,1]]},"references-count":76,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2022,1]]}},"alternative-id":["S0888754321004298"],"URL":"https:\/\/doi.org\/10.1016\/j.ygeno.2021.12.003","relation":{},"ISSN":["0888-7543"],"issn-type":[{"type":"print","value":"0888-7543"}],"subject":[],"published":{"date-parts":[[2022,1]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Two novel RNA-binding proteins identification through computational prediction and experimental validation","name":"articletitle","label":"Article Title"},{"value":"Genomics","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.ygeno.2021.12.003","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2021 Huazhong University of Science and Technology. Published by Elsevier Inc.","name":"copyright","label":"Copyright"}]}}