{"id":"https://openalex.org/W3164382315","doi":"https://doi.org/10.1093/nar/gkab393","title":"<i>cat</i>RAPID<i>omics v2.0</i>: going deeper and wider in the prediction of protein\u2013RNA interactions","display_name":"<i>cat</i>RAPID<i>omics v2.0</i>: going deeper and wider in the prediction of protein\u2013RNA interactions","publication_year":2021,"publication_date":"2021-04-29","ids":{"openalex":"https://openalex.org/W3164382315","doi":"https://doi.org/10.1093/nar/gkab393","mag":"3164382315","pmid":"https://pubmed.ncbi.nlm.nih.gov/34086933"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkab393","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkab393","pdf_url":"https://academic.oup.com/nar/article-pdf/49/W1/W72/38841832/gkab393.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/49/W1/W72/38841832/gkab393.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5007261639","display_name":"Alexandros Armaos","orcid":"https://orcid.org/0000-0003-0607-5663"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Alexandros Armaos","raw_affiliation_strings":["Center for Human Technology, Fondazione Istituto Italiano di Tecnologia (IIT), Genoa\u00a016152, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Human Technology, Fondazione Istituto Italiano di Tecnologia (IIT), Genoa\u00a016152, Italy","institution_ids":["https://openalex.org/I30771326"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004336723","display_name":"Alessio Colantoni","orcid":"https://orcid.org/0000-0001-7402-0176"},"institutions":[{"id":"https://openalex.org/I861853513","display_name":"Sapienza University of Rome","ror":"https://ror.org/02be6w209","country_code":"IT","type":"education","lineage":["https://openalex.org/I861853513"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Alessio Colantoni","raw_affiliation_strings":["Department of Biology and Biotechnology Charles Darwin, Sapienza University of Rome, Rome\u00a000185, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology and Biotechnology Charles Darwin, Sapienza University of Rome, Rome\u00a000185, Italy","institution_ids":["https://openalex.org/I861853513"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052939482","display_name":"Gabriele Proietti","orcid":null},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]},{"id":"https://openalex.org/I83816512","display_name":"University of Genoa","ror":"https://ror.org/0107c5v14","country_code":"IT","type":"education","lineage":["https://openalex.org/I83816512"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Gabriele Proietti","raw_affiliation_strings":["Center for Human Technology, Fondazione Istituto Italiano di Tecnologia (IIT), Genoa\u00a016152, Italy","Dipartimento di\u00a0Neuroscienze, University of Genova,\u00a0Genoa 16126,\u00a0Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Human Technology, Fondazione Istituto Italiano di Tecnologia (IIT), Genoa\u00a016152, Italy","institution_ids":["https://openalex.org/I30771326"]},{"raw_affiliation_string":"Dipartimento di\u00a0Neuroscienze, University of Genova,\u00a0Genoa 16126,\u00a0Italy","institution_ids":["https://openalex.org/I83816512"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008535698","display_name":"Jakob Rupert","orcid":"https://orcid.org/0000-0002-0879-1594"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]},{"id":"https://openalex.org/I861853513","display_name":"Sapienza University of Rome","ror":"https://ror.org/02be6w209","country_code":"IT","type":"education","lineage":["https://openalex.org/I861853513"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Jakob Rupert","raw_affiliation_strings":["Center for Human Technology, Fondazione Istituto Italiano di Tecnologia (IIT), Genoa\u00a016152, Italy","Department of Biology and Biotechnology Charles Darwin, Sapienza University of Rome, Rome\u00a000185, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Human Technology, Fondazione Istituto Italiano di Tecnologia (IIT), Genoa\u00a016152, Italy","institution_ids":["https://openalex.org/I30771326"]},{"raw_affiliation_string":"Department of Biology and Biotechnology Charles Darwin, Sapienza University of Rome, Rome\u00a000185, Italy","institution_ids":["https://openalex.org/I861853513"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5052209378","display_name":"Gian Gaetano Tartaglia","orcid":"https://orcid.org/0000-0001-7524-6310"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]},{"id":"https://openalex.org/I861853513","display_name":"Sapienza University of Rome","ror":"https://ror.org/02be6w209","country_code":"IT","type":"education","lineage":["https://openalex.org/I861853513"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Gian\u00a0Gaetano Tartaglia","raw_affiliation_strings":["Center for Human Technology, Fondazione Istituto Italiano di Tecnologia (IIT), Genoa\u00a016152, Italy","Center for Life Nano-\u00a0& Neuro-Science, Fondazione Istituto Italiano di Tecnologia (IIT), Rome 00161, Italy","Department of Biology and Biotechnology Charles Darwin, Sapienza University of Rome, Rome\u00a000185, Italy"],"raw_orcid":"https://orcid.org/0000-0001-7524-6310","affiliations":[{"raw_affiliation_string":"Center for Human Technology, Fondazione Istituto Italiano di Tecnologia (IIT), Genoa\u00a016152, Italy","institution_ids":["https://openalex.org/I30771326"]},{"raw_affiliation_string":"Center for Life Nano-\u00a0& Neuro-Science, Fondazione Istituto Italiano di Tecnologia (IIT), Rome 00161, Italy","institution_ids":["https://openalex.org/I30771326"]},{"raw_affiliation_string":"Department of Biology and Biotechnology Charles Darwin, Sapienza University of Rome, Rome\u00a000185, Italy","institution_ids":["https://openalex.org/I861853513"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5052209378"],"corresponding_institution_ids":["https://openalex.org/I30771326","https://openalex.org/I861853513"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":14.3752,"has_fulltext":true,"cited_by_count":280,"citation_normalized_percentile":{"value":0.9952013,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"49","issue":"W1","first_page":"W72","last_page":"W79"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11482","display_name":"RNA modifications and cancer","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.7578635215759277},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7470146417617798},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6656396389007568},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.5700616240501404},{"id":"https://openalex.org/keywords/rna-binding-protein","display_name":"RNA-binding protein","score":0.4957772195339203},{"id":"https://openalex.org/keywords/proteome","display_name":"Proteome","score":0.48161524534225464},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.46932360529899597},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3964167833328247},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.336162269115448},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.26454776525497437},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.21043384075164795},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.17877325415611267},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.17719006538391113},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.14421603083610535}],"concepts":[{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.7578635215759277},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7470146417617798},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6656396389007568},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.5700616240501404},{"id":"https://openalex.org/C41282012","wikidata":"https://www.wikidata.org/wiki/Q3928341","display_name":"RNA-binding protein","level":4,"score":0.4957772195339203},{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.48161524534225464},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.46932360529899597},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3964167833328247},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.336162269115448},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.26454776525497437},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.21043384075164795},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.17877325415611267},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.17719006538391113},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.14421603083610535}],"mesh":[{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000079962","descriptor_name":"RNA, Circular","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gkab393","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkab393","pdf_url":"https://academic.oup.com/nar/article-pdf/49/W1/W72/38841832/gkab393.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:34086933","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34086933","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:iris.uniroma1.it:11573/1615411","is_oa":true,"landing_page_url":"https://hdl.handle.net/11573/1615411","pdf_url":null,"source":{"id":"https://openalex.org/S4377196107","display_name":"IRIS Research product catalog (Sapienza University of Rome)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8262727","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8262727","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkab393","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkab393","pdf_url":"https://academic.oup.com/nar/article-pdf/49/W1/W72/38841832/gkab393.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2380415859","display_name":null,"funder_award_id":"RIBOMYLOME_309545","funder_id":"https://openalex.org/F4320338335","funder_display_name":"H2020 European Research Council"},{"id":"https://openalex.org/G3176629425","display_name":null,"funder_award_id":"825080","funder_id":"https://openalex.org/F4320332999","funder_display_name":"Horizon 2020 Framework Programme"},{"id":"https://openalex.org/G365898745","display_name":null,"funder_award_id":"ASTRA 855923","funder_id":"https://openalex.org/F4320338335","funder_display_name":"H2020 European Research Council"},{"id":"https://openalex.org/G414614581","display_name":null,"funder_award_id":"INFORE 825080","funder_id":"https://openalex.org/F4320332999","funder_display_name":"Horizon 2020 Framework Programme"},{"id":"https://openalex.org/G431583663","display_name":null,"funder_award_id":"IASIS 727658","funder_id":"https://openalex.org/F4320332999","funder_display_name":"Horizon 2020 Framework Programme"},{"id":"https://openalex.org/G7632700759","display_name":null,"funder_award_id":"727658","funder_id":"https://openalex.org/F4320332999","funder_display_name":"Horizon 2020 Framework Programme"}],"funders":[{"id":"https://openalex.org/F4320332999","display_name":"Horizon 2020 Framework Programme","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320338335","display_name":"H2020 European Research Council","ror":"https://ror.org/0472cxd90"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W3164382315.pdf"},"referenced_works_count":59,"referenced_works":["https://openalex.org/W1731645091","https://openalex.org/W1894777043","https://openalex.org/W1978547782","https://openalex.org/W1997535872","https://openalex.org/W2012322293","https://openalex.org/W2031989334","https://openalex.org/W2033253992","https://openalex.org/W2055431298","https://openalex.org/W2063798177","https://openalex.org/W2081870117","https://openalex.org/W2088123221","https://openalex.org/W2089927164","https://openalex.org/W2092170757","https://openalex.org/W2099899772","https://openalex.org/W2105694586","https://openalex.org/W2108575282","https://openalex.org/W2110248950","https://openalex.org/W2122358139","https://openalex.org/W2135621733","https://openalex.org/W2141885858","https://openalex.org/W2157349384","https://openalex.org/W2167017264","https://openalex.org/W2168325719","https://openalex.org/W2281531600","https://openalex.org/W2309862611","https://openalex.org/W2331530999","https://openalex.org/W2567167447","https://openalex.org/W2577961466","https://openalex.org/W2605068739","https://openalex.org/W2785329615","https://openalex.org/W2898598946","https://openalex.org/W2898603273","https://openalex.org/W2901900409","https://openalex.org/W2903742208","https://openalex.org/W2915985519","https://openalex.org/W2941873727","https://openalex.org/W2950954328","https://openalex.org/W2951539817","https://openalex.org/W2952776850","https://openalex.org/W2972404221","https://openalex.org/W2979844864","https://openalex.org/W2988820761","https://openalex.org/W3006437689","https://openalex.org/W3020614442","https://openalex.org/W3034104626","https://openalex.org/W3042137552","https://openalex.org/W3046003662","https://openalex.org/W3095739777","https://openalex.org/W3112376646","https://openalex.org/W3117640930","https://openalex.org/W4206037526","https://openalex.org/W4210290733","https://openalex.org/W4210623056","https://openalex.org/W4212920271","https://openalex.org/W4247412012","https://openalex.org/W6681765588","https://openalex.org/W6732349770","https://openalex.org/W6806115372","https://openalex.org/W7015970112"],"related_works":["https://openalex.org/W2399513595","https://openalex.org/W1973959357","https://openalex.org/W2360158017","https://openalex.org/W4388386498","https://openalex.org/W2126785046","https://openalex.org/W4399812588","https://openalex.org/W2806166617","https://openalex.org/W2030680494","https://openalex.org/W2939973050","https://openalex.org/W4235011756"],"abstract_inverted_index":{"Prediction":[0],"of":[1,23,31,91,95,106,115,183],"protein-RNA":[2,32,140,166],"interactions":[3,72,161,185],"is":[4,66,174,187],"important":[5],"to":[6,28,69,127,133],"understand":[7],"post-transcriptional":[8],"events":[9],"taking":[10],"place":[11],"in":[12,41,150,164],"the":[13,29,36,71,89,102,111,116,125,138,142,146,159,179],"cell.":[14],"Here":[15],"we":[16],"introduce":[17],"catRAPID":[18,57,117,169],"omics":[19,170],"v2.0,":[20],"an":[21],"update":[22],"our":[24],"web":[25,143,172],"server":[26,46,126,144,173],"dedicated":[27],"computation":[30],"interaction":[33,58],"propensities":[34],"at":[35,190],"transcriptome-":[37],"and":[38,54,78,132,153,156,181,186,195],"RNA-binding":[39,96],"proteome-level":[40],"8":[42],"model":[43],"organisms.":[44],"The":[45,168],"accepts":[47],"multiple":[48],"input":[49],"protein":[50,76,152],"or":[51],"RNA":[52,81,104,154],"sequences":[53,155],"computes":[55],"their":[56],"scores":[59],"on":[60],"updated":[61],"precompiled":[62],"libraries.":[63],"Additionally,":[64],"it":[65],"now":[67],"possible":[68],"predict":[70],"between":[73],"a":[74,79,92,175],"custom":[75,80],"set":[77],"set.":[82],"Considerable":[83],"effort":[84],"has":[85,120],"been":[86,121],"put":[87],"into":[88],"generation":[90],"new":[93],"database":[94],"motifs":[97],"that":[98],"are":[99,162],"searched":[100],"within":[101],"predicted":[103,147,160],"targets":[105],"proteins.":[107],"In":[108],"this":[109],"update,":[110],"sequence":[112],"fragmentation":[113],"scheme":[114],"fragment":[118],"module":[119],"included,":[122],"which":[123],"allows":[124],"handle":[128],"long":[129],"linear":[130],"RNAs":[131],"analyse":[134],"circular":[135],"RNAs.":[136],"For":[137],"top-scoring":[139],"pairs,":[141],"shows":[145],"binding":[148],"sites":[149],"both":[151],"reports":[157],"whether":[158],"conserved":[163],"orthologous":[165],"pairs.":[167],"v2.0":[171],"powerful":[176],"tool":[177],"for":[178],"characterization":[180],"classification":[182],"RNA-protein":[184],"freely":[188],"available":[189],"http://service.tartaglialab.com/page/catrapid_omics2_group":[191],"along":[192],"with":[193],"documentation":[194],"tutorial.":[196]},"counts_by_year":[{"year":2026,"cited_by_count":23},{"year":2025,"cited_by_count":69},{"year":2024,"cited_by_count":69},{"year":2023,"cited_by_count":51},{"year":2022,"cited_by_count":52},{"year":2021,"cited_by_count":16}],"updated_date":"2026-08-06T08:24:18.245995","created_date":"2021-06-07T00:00:00"}