{"id":"https://openalex.org/W4282047988","doi":"https://doi.org/10.1093/bioinformatics/btac363","title":"CLIPreg: constructing translational regulatory networks from CLIP-, Ribo- and RNA-seq","display_name":"CLIPreg: constructing translational regulatory networks from CLIP-, Ribo- and RNA-seq","publication_year":2022,"publication_date":"2022-06-02","ids":{"openalex":"https://openalex.org/W4282047988","doi":"https://doi.org/10.1093/bioinformatics/btac363","pmid":"https://pubmed.ncbi.nlm.nih.gov/35652722"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btac363","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac363","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5048606665","display_name":"Baptiste Kerouanton","orcid":"https://orcid.org/0000-0003-1096-3428"},"institutions":[{"id":"https://openalex.org/I4210126319","display_name":"Duke-NUS Medical School","ror":"https://ror.org/02j1m6098","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596","https://openalex.org/I170897317","https://openalex.org/I4210126319"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Baptiste Kerouanton","raw_affiliation_strings":["Program in Cardiovascular and Metabolic Disorders, Duke-NUS Medical School , Singapore 169857, Singapore"],"affiliations":[{"raw_affiliation_string":"Program in Cardiovascular and Metabolic Disorders, Duke-NUS Medical School , Singapore 169857, Singapore","institution_ids":["https://openalex.org/I4210126319"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023434480","display_name":"Sebastian Sch\u00e4fer","orcid":"https://orcid.org/0000-0002-6909-8275"},"institutions":[{"id":"https://openalex.org/I4210126319","display_name":"Duke-NUS Medical School","ror":"https://ror.org/02j1m6098","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596","https://openalex.org/I170897317","https://openalex.org/I4210126319"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Sebastian Sch\u00e4fer","raw_affiliation_strings":["Program in Cardiovascular and Metabolic Disorders, Duke-NUS Medical School , Singapore 169857, Singapore"],"affiliations":[{"raw_affiliation_string":"Program in Cardiovascular and Metabolic Disorders, Duke-NUS Medical School , Singapore 169857, Singapore","institution_ids":["https://openalex.org/I4210126319"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017811837","display_name":"Lena Ho","orcid":"https://orcid.org/0000-0002-9358-621X"},"institutions":[{"id":"https://openalex.org/I4210126319","display_name":"Duke-NUS Medical School","ror":"https://ror.org/02j1m6098","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596","https://openalex.org/I170897317","https://openalex.org/I4210126319"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Lena Ho","raw_affiliation_strings":["Program in Cardiovascular and Metabolic Disorders, Duke-NUS Medical School , Singapore 169857, Singapore"],"affiliations":[{"raw_affiliation_string":"Program in Cardiovascular and Metabolic Disorders, Duke-NUS Medical School , Singapore 169857, Singapore","institution_ids":["https://openalex.org/I4210126319"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021463132","display_name":"Sonia Chothani","orcid":"https://orcid.org/0000-0002-1010-7069"},"institutions":[{"id":"https://openalex.org/I4210126319","display_name":"Duke-NUS Medical School","ror":"https://ror.org/02j1m6098","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596","https://openalex.org/I170897317","https://openalex.org/I4210126319"]}],"countries":["SG"],"is_corresponding":true,"raw_author_name":"Sonia Chothani","raw_affiliation_strings":["Program in Cardiovascular and Metabolic Disorders, Duke-NUS Medical School , Singapore 169857, Singapore"],"affiliations":[{"raw_affiliation_string":"Program in Cardiovascular and Metabolic Disorders, Duke-NUS Medical School , Singapore 169857, Singapore","institution_ids":["https://openalex.org/I4210126319"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071991185","display_name":"Owen J. L. Rackham","orcid":"https://orcid.org/0000-0002-4390-0872"},"institutions":[{"id":"https://openalex.org/I4210126319","display_name":"Duke-NUS Medical School","ror":"https://ror.org/02j1m6098","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596","https://openalex.org/I170897317","https://openalex.org/I4210126319"]},{"id":"https://openalex.org/I43439940","display_name":"University of Southampton","ror":"https://ror.org/01ryk1543","country_code":"GB","type":"education","lineage":["https://openalex.org/I43439940"]}],"countries":["GB","SG"],"is_corresponding":true,"raw_author_name":"Owen J L Rackham","raw_affiliation_strings":["Program in Cardiovascular and Metabolic Disorders, Duke-NUS Medical School , Singapore 169857, Singapore","School of Biological Sciences, University of Southampton , Southampton, SO17 1BJ, UK"],"affiliations":[{"raw_affiliation_string":"Program in Cardiovascular and Metabolic Disorders, Duke-NUS Medical School , Singapore 169857, Singapore","institution_ids":["https://openalex.org/I4210126319"]},{"raw_affiliation_string":"School of Biological Sciences, University of Southampton , Southampton, SO17 1BJ, UK","institution_ids":["https://openalex.org/I43439940"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5021463132","https://openalex.org/A5071991185"],"corresponding_institution_ids":["https://openalex.org/I4210126319","https://openalex.org/I43439940"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.05230866,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"38","issue":"14","first_page":"3651","last_page":"3653"},"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":0.9998000264167786,"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/gene-regulatory-network","display_name":"Gene regulatory network","score":0.6124452352523804},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6017007827758789},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.5537190437316895},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.5013964176177979},{"id":"https://openalex.org/keywords/construct","display_name":"Construct (python library)","score":0.49455735087394714},{"id":"https://openalex.org/keywords/regulatory-sequence","display_name":"Regulatory sequence","score":0.4920749068260193},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.48892942070961},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4576801657676697},{"id":"https://openalex.org/keywords/translational-regulation","display_name":"Translational regulation","score":0.44827014207839966},{"id":"https://openalex.org/keywords/transcriptional-regulation","display_name":"Transcriptional regulation","score":0.42182299494743347},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.41318532824516296},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3241562247276306},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.29324913024902344},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2725077271461487},{"id":"https://openalex.org/keywords/messenger-rna","display_name":"Messenger RNA","score":0.21475830674171448},{"id":"https://openalex.org/keywords/translation","display_name":"Translation (biology)","score":0.16945943236351013}],"concepts":[{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.6124452352523804},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6017007827758789},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.5537190437316895},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.5013964176177979},{"id":"https://openalex.org/C2780801425","wikidata":"https://www.wikidata.org/wiki/Q5164392","display_name":"Construct (python library)","level":2,"score":0.49455735087394714},{"id":"https://openalex.org/C21592294","wikidata":"https://www.wikidata.org/wiki/Q3238407","display_name":"Regulatory sequence","level":4,"score":0.4920749068260193},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.48892942070961},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4576801657676697},{"id":"https://openalex.org/C39685955","wikidata":"https://www.wikidata.org/wiki/Q3455905","display_name":"Translational regulation","level":5,"score":0.44827014207839966},{"id":"https://openalex.org/C27153228","wikidata":"https://www.wikidata.org/wiki/Q3787274","display_name":"Transcriptional regulation","level":4,"score":0.42182299494743347},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.41318532824516296},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3241562247276306},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.29324913024902344},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2725077271461487},{"id":"https://openalex.org/C105580179","wikidata":"https://www.wikidata.org/wiki/Q188928","display_name":"Messenger RNA","level":3,"score":0.21475830674171448},{"id":"https://openalex.org/C149364088","wikidata":"https://www.wikidata.org/wiki/Q185917","display_name":"Translation (biology)","level":4,"score":0.16945943236351013},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btac363","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac363","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:35652722","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35652722","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:eprints.soton.ac.uk:501253","is_oa":false,"landing_page_url":"http://doi.org/10.1093/bioinformatics/btac363>).","pdf_url":null,"source":{"id":"https://openalex.org/S4306401019","display_name":"ePrints Soton (University of Southampton)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I43439940","host_organization_name":"University of Southampton","host_organization_lineage":["https://openalex.org/I43439940"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"PeerReviewed"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","score":0.46000000834465027,"display_name":"Partnerships for the goals"}],"awards":[{"id":"https://openalex.org/G7171666193","display_name":null,"funder_award_id":"NRF-CRP20-2017-0002","funder_id":"https://openalex.org/F4320320709","funder_display_name":"National Research Foundation Singapore"}],"funders":[{"id":"https://openalex.org/F4320320709","display_name":"National Research Foundation Singapore","ror":"https://ror.org/03cpyc314"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":13,"referenced_works":["https://openalex.org/W2062533676","https://openalex.org/W2126991652","https://openalex.org/W2149791465","https://openalex.org/W2307041907","https://openalex.org/W2527824902","https://openalex.org/W2557493485","https://openalex.org/W2763558783","https://openalex.org/W2768826694","https://openalex.org/W2958340383","https://openalex.org/W2980897189","https://openalex.org/W2993347499","https://openalex.org/W3014747614","https://openalex.org/W3121872035"],"related_works":["https://openalex.org/W2010571965","https://openalex.org/W2912720016","https://openalex.org/W2002709996","https://openalex.org/W3128451840","https://openalex.org/W4387092964","https://openalex.org/W2103471012","https://openalex.org/W2277277196","https://openalex.org/W2043274041","https://openalex.org/W2620422757","https://openalex.org/W2056161765"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[],"updated_date":"2025-11-23T05:10:03.516525","created_date":"2025-10-10T00:00:00"}
