{"id":"https://openalex.org/W2110601338","doi":"https://doi.org/10.1093/bioinformatics/btn501","title":"Integrating and annotating the interactome using the MiMI plugin for cytoscape","display_name":"Integrating and annotating the interactome using the MiMI plugin for cytoscape","publication_year":2008,"publication_date":"2008-09-23","ids":{"openalex":"https://openalex.org/W2110601338","doi":"https://doi.org/10.1093/bioinformatics/btn501","mag":"2110601338","pmid":"https://pubmed.ncbi.nlm.nih.gov/18812364"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btn501","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn501","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/1/137/48982205/bioinformatics_25_1_137.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/25/1/137/48982205/bioinformatics_25_1_137.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101632785","display_name":"Jing Gao","orcid":"https://orcid.org/0000-0002-4815-4565"},"institutions":[{"id":"https://openalex.org/I4210117557","display_name":"Michigan Center for Translational Pathology","ror":"https://ror.org/027t4kk23","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210114445","https://openalex.org/I4210117557"]},{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jing Gao","raw_affiliation_strings":["National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA","institution_ids":["https://openalex.org/I4210117557","https://openalex.org/I27837315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082986778","display_name":"Alex Ade","orcid":null},"institutions":[{"id":"https://openalex.org/I4210117557","display_name":"Michigan Center for Translational Pathology","ror":"https://ror.org/027t4kk23","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210114445","https://openalex.org/I4210117557"]},{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alex S. Ade","raw_affiliation_strings":["National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA","institution_ids":["https://openalex.org/I4210117557","https://openalex.org/I27837315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045247997","display_name":"V. Glenn Tarcea","orcid":null},"institutions":[{"id":"https://openalex.org/I4210117557","display_name":"Michigan Center for Translational Pathology","ror":"https://ror.org/027t4kk23","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210114445","https://openalex.org/I4210117557"]},{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"V. Glenn Tarcea","raw_affiliation_strings":["National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA","institution_ids":["https://openalex.org/I4210117557","https://openalex.org/I27837315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076809103","display_name":"Terry E. Weymouth","orcid":null},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I4210117557","display_name":"Michigan Center for Translational Pathology","ror":"https://ror.org/027t4kk23","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210114445","https://openalex.org/I4210117557"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Terry E. Weymouth","raw_affiliation_strings":["National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA","institution_ids":["https://openalex.org/I4210117557","https://openalex.org/I27837315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110271143","display_name":"Barbara R. Mirel","orcid":null},"institutions":[{"id":"https://openalex.org/I4210117557","display_name":"Michigan Center for Translational Pathology","ror":"https://ror.org/027t4kk23","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210114445","https://openalex.org/I4210117557"]},{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Barbara R. Mirel","raw_affiliation_strings":["National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA","institution_ids":["https://openalex.org/I4210117557","https://openalex.org/I27837315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090550596","display_name":"H. V. Jagadish","orcid":"https://orcid.org/0000-0003-0724-5214"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I4210117557","display_name":"Michigan Center for Translational Pathology","ror":"https://ror.org/027t4kk23","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210114445","https://openalex.org/I4210117557"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"H.V. Jagadish","raw_affiliation_strings":["National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA","institution_ids":["https://openalex.org/I4210117557","https://openalex.org/I27837315"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5111548295","display_name":"David J. States","orcid":null},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I4210117557","display_name":"Michigan Center for Translational Pathology","ror":"https://ror.org/027t4kk23","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210114445","https://openalex.org/I4210117557"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David J. States","raw_affiliation_strings":["National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA"],"affiliations":[{"raw_affiliation_string":"National Center for Integrative Biomedical Informatics, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA","institution_ids":["https://openalex.org/I4210117557","https://openalex.org/I27837315"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5101632785"],"corresponding_institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210117557"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":5.1007,"has_fulltext":true,"cited_by_count":126,"citation_normalized_percentile":{"value":0.96204513,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"25","issue":"1","first_page":"137","last_page":"138"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9994000196456909,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9994000196456909,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9916999936103821,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.98089998960495,"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/plug-in","display_name":"Plug-in","score":0.9516856670379639},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.808017373085022},{"id":"https://openalex.org/keywords/interactome","display_name":"Interactome","score":0.7384665012359619},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6821656823158264},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.580939531326294},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4241589903831482},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.40423962473869324},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3913089334964752},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23673570156097412},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.20756620168685913},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.19952285289764404},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.11955690383911133},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11584311723709106}],"concepts":[{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.9516856670379639},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.808017373085022},{"id":"https://openalex.org/C9760119","wikidata":"https://www.wikidata.org/wiki/Q841382","display_name":"Interactome","level":3,"score":0.7384665012359619},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6821656823158264},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.580939531326294},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4241589903831482},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.40423962473869324},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3913089334964752},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23673570156097412},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.20756620168685913},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.19952285289764404},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.11955690383911133},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11584311723709106}],"mesh":[{"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btn501","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn501","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/1/137/48982205/bioinformatics_25_1_137.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:18812364","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18812364","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:pubmedcentral.nih.gov:2638934","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2638934","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btn501","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn501","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/1/137/48982205/bioinformatics_25_1_137.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":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2110601338.pdf","grobid_xml":"https://content.openalex.org/works/W2110601338.grobid-xml"},"referenced_works_count":12,"referenced_works":["https://openalex.org/W1597403892","https://openalex.org/W1812401750","https://openalex.org/W2013009523","https://openalex.org/W2097754270","https://openalex.org/W2102057828","https://openalex.org/W2106552363","https://openalex.org/W2112200469","https://openalex.org/W2114228709","https://openalex.org/W2114837391","https://openalex.org/W2158541664","https://openalex.org/W2159675211","https://openalex.org/W6677324800"],"related_works":["https://openalex.org/W4292634579","https://openalex.org/W2964314049","https://openalex.org/W2924735795","https://openalex.org/W4225868462","https://openalex.org/W3005984791","https://openalex.org/W2979636089","https://openalex.org/W2169777166","https://openalex.org/W2007507741","https://openalex.org/W1982038138","https://openalex.org/W4377194874"],"abstract_inverted_index":{"MiMI":[0,43],"plugin":[1,13,22],"v3.0.1":[2],"can":[3],"be":[4],"installed":[5],"from":[6],"within":[7],"Cytoscape":[8,12,27],"2.6":[9],"using":[10,30],"the":[11],"manager":[14],"in":[15,42],"'Network":[16],"and":[17,39],"Attribute":[18],"I/0'":[19],"category.":[20],"The":[21],"is":[23,28],"also":[24],"preloaded":[25],"when":[26],"launched":[29],"Java":[31],"WebStart":[32],"at":[33],"http://mimi.ncibi.org":[34],"by":[35],"querying":[36],"a":[37],"gene":[38],"clicking":[40],"'View":[41],"Plugin":[44],"for":[45],"Cytoscape'":[46],"link.":[47]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":12},{"year":2015,"cited_by_count":8},{"year":2014,"cited_by_count":23},{"year":2013,"cited_by_count":15},{"year":2012,"cited_by_count":19}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
