{"id":"https://openalex.org/W2120658066","doi":"https://doi.org/10.1093/bioinformatics/btu306","title":"Mirin: identifying microRNA regulatory modules in protein\u2013protein interaction networks","display_name":"Mirin: identifying microRNA regulatory modules in protein\u2013protein interaction networks","publication_year":2014,"publication_date":"2014-05-02","ids":{"openalex":"https://openalex.org/W2120658066","doi":"https://doi.org/10.1093/bioinformatics/btu306","mag":"2120658066","pmid":"https://pubmed.ncbi.nlm.nih.gov/24794934"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu306","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu306","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/17/2527/48927391/bioinformatics_30_17_2527.pdf","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":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/30/17/2527/48927391/bioinformatics_30_17_2527.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021907229","display_name":"Ken-Chi Yang","orcid":null},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I16733864","display_name":"National Taiwan University","ror":"https://ror.org/05bqach95","country_code":"TW","type":"education","lineage":["https://openalex.org/I16733864"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Ken-Chi Yang","raw_affiliation_strings":["1 \u00a01Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei 112, 2Department of Life Science, 3Graduate Institute of Biomedical Electronics and Bioinformatics and 4Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei 112, 2Department of Life Science, 3Graduate Institute of Biomedical Electronics and Bioinformatics and 4Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan","institution_ids":["https://openalex.org/I148366613","https://openalex.org/I16733864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033886049","display_name":"Chia\u2010Lang Hsu","orcid":"https://orcid.org/0000-0002-7447-8045"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I16733864","display_name":"National Taiwan University","ror":"https://ror.org/05bqach95","country_code":"TW","type":"education","lineage":["https://openalex.org/I16733864"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Chia-Lang Hsu","raw_affiliation_strings":["1 \u00a01Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei 112, 2Department of Life Science, 3Graduate Institute of Biomedical Electronics and Bioinformatics and 4Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei 112, 2Department of Life Science, 3Graduate Institute of Biomedical Electronics and Bioinformatics and 4Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan","institution_ids":["https://openalex.org/I148366613","https://openalex.org/I16733864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110205262","display_name":"Chen-Ching Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I16733864","display_name":"National Taiwan University","ror":"https://ror.org/05bqach95","country_code":"TW","type":"education","lineage":["https://openalex.org/I16733864"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Chen-Ching Lin","raw_affiliation_strings":["1 \u00a01Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei 112, 2Department of Life Science, 3Graduate Institute of Biomedical Electronics and Bioinformatics and 4Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei 112, 2Department of Life Science, 3Graduate Institute of Biomedical Electronics and Bioinformatics and 4Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan","institution_ids":["https://openalex.org/I148366613","https://openalex.org/I16733864"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052313712","display_name":"Hsueh\u2010Fen Juan","orcid":"https://orcid.org/0000-0003-4876-3309"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I16733864","display_name":"National Taiwan University","ror":"https://ror.org/05bqach95","country_code":"TW","type":"education","lineage":["https://openalex.org/I16733864"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"Hsueh-Fen Juan","raw_affiliation_strings":["1 \u00a01Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei 112, 2Department of Life Science, 3Graduate Institute of Biomedical Electronics and Bioinformatics and 4Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei 112, 2Department of Life Science, 3Graduate Institute of Biomedical Electronics and Bioinformatics and 4Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan","institution_ids":["https://openalex.org/I148366613","https://openalex.org/I16733864"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5049081893","display_name":"Hsuan\u2010Cheng Huang","orcid":"https://orcid.org/0000-0002-3386-0934"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I16733864","display_name":"National Taiwan University","ror":"https://ror.org/05bqach95","country_code":"TW","type":"education","lineage":["https://openalex.org/I16733864"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"Hsuan-Cheng Huang","raw_affiliation_strings":["1 \u00a01Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei 112, 2Department of Life Science, 3Graduate Institute of Biomedical Electronics and Bioinformatics and 4Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Institute of Biomedical Informatics, Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei 112, 2Department of Life Science, 3Graduate Institute of Biomedical Electronics and Bioinformatics and 4Institute of Molecular and Cellular Biology, National Taiwan University, Taipei 106, Taiwan","institution_ids":["https://openalex.org/I148366613","https://openalex.org/I16733864"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5049081893","https://openalex.org/A5052313712"],"corresponding_institution_ids":["https://openalex.org/I148366613","https://openalex.org/I16733864"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.3983,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.60797412,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"30","issue":"17","first_page":"2527","last_page":"2528"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","score":0.5134000182151794,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10062","display_name":"MicroRNA in disease regulation","score":0.5134000182151794,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.1152999997138977,"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/T11297","display_name":"Ferroptosis and cancer prognosis","score":0.021199999377131462,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/microrna","display_name":"microRNA","score":0.8608236312866211},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6473102569580078},{"id":"https://openalex.org/keywords/protein\u2013protein-interaction","display_name":"Protein\u2013protein interaction","score":0.57205730676651},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5203218460083008},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4614279568195343},{"id":"https://openalex.org/keywords/interaction-network","display_name":"Interaction network","score":0.4344809949398041},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.29126545786857605}],"concepts":[{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.8608236312866211},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6473102569580078},{"id":"https://openalex.org/C11804247","wikidata":"https://www.wikidata.org/wiki/Q896177","display_name":"Protein\u2013protein interaction","level":2,"score":0.57205730676651},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5203218460083008},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4614279568195343},{"id":"https://openalex.org/C55105296","wikidata":"https://www.wikidata.org/wiki/Q841382","display_name":"Interaction network","level":3,"score":0.4344809949398041},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.29126545786857605}],"mesh":[{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btu306","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu306","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/17/2527/48927391/bioinformatics_30_17_2527.pdf","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:24794934","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24794934","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}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu306","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu306","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/17/2527/48927391/bioinformatics_30_17_2527.pdf","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"},"sustainable_development_goals":[{"score":0.5400000214576721,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2120658066.pdf"},"referenced_works_count":13,"referenced_works":["https://openalex.org/W1967925377","https://openalex.org/W1973247012","https://openalex.org/W1986724703","https://openalex.org/W1999119052","https://openalex.org/W2023833090","https://openalex.org/W2071676659","https://openalex.org/W2084305606","https://openalex.org/W2095619968","https://openalex.org/W2107249189","https://openalex.org/W2116075981","https://openalex.org/W2124035671","https://openalex.org/W2128768066","https://openalex.org/W2153156148"],"related_works":["https://openalex.org/W4229728790","https://openalex.org/W2800059693","https://openalex.org/W2066232588","https://openalex.org/W4377086792","https://openalex.org/W2099982459","https://openalex.org/W1982038138","https://openalex.org/W2099913238","https://openalex.org/W2767490506","https://openalex.org/W2109298101","https://openalex.org/W4381715389"],"abstract_inverted_index":{"UNLABELLED:":[0],"Exploring":[1],"microRNA":[2],"(miRNA)":[3],"regulations":[4],"and":[5,58,70,80],"protein-protein":[6,29,49],"interactions":[7,50],"could":[8],"reveal":[9],"the":[10],"molecular":[11],"mechanisms":[12],"responsible":[13],"for":[14,24],"complex":[15],"biological":[16,38],"processes.":[17],"Mirin":[18,65,86],"is":[19,87],"a":[20],"web-based":[21],"application":[22],"suitable":[23],"identifying":[25],"functional":[26],"modules":[27],"from":[28],"interaction":[30],"networks":[31,73],"regulated":[32],"by":[33,63],"aberrant":[34],"miRNAs":[35],"under":[36],"user-defined":[37],"conditions":[39],"such":[40,77],"as":[41,54,56,78],"cancers.":[42],"The":[43],"analysis":[44],"involves":[45],"combining":[46],"miRNA":[47,59],"regulations,":[48],"between":[51],"target":[52],"genes,":[53],"well":[55],"mRNA":[57],"expression":[60],"profiles":[61],"provided":[62],"users.":[64],"has":[66],"successfully":[67],"uncovered":[68],"oncomirs":[69],"their":[71],"regulatory":[72],"in":[74],"various":[75],"cancers,":[76],"gastric":[79],"breast":[81],"cancer.":[82],"AVAILABILITY":[83],"AND":[84],"IMPLEMENTATION:":[85],"freely":[88],"available":[89,97],"at":[90,98],"http://mirin.ym.edu.tw/.":[91],"SUPPLEMENTARY":[92],"INFORMATION:":[93],"Supplementary":[94],"data":[95],"are":[96],"Bioinformatics":[99],"online.":[100]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":2}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
