{"id":"https://openalex.org/W2130336419","doi":"https://doi.org/10.1093/bioinformatics/btv316","title":"xHeinz: an algorithm for mining cross-species network modules under a flexible conservation model","display_name":"xHeinz: an algorithm for mining cross-species network modules under a flexible conservation model","publication_year":2015,"publication_date":"2015-05-27","ids":{"openalex":"https://openalex.org/W2130336419","doi":"https://doi.org/10.1093/bioinformatics/btv316","mag":"2130336419","pmid":"https://pubmed.ncbi.nlm.nih.gov/26023104"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv316","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv316","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/19/3147/49035113/bioinformatics_31_19_3147.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/31/19/3147/49035113/bioinformatics_31_19_3147.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5089040838","display_name":"Mohammed El-Kebir","orcid":"https://orcid.org/0000-0002-1468-2407"},"institutions":[{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832","https://openalex.org/I4405262988"]},{"id":"https://openalex.org/I27804330","display_name":"Brown University","ror":"https://ror.org/05gq02987","country_code":"US","type":"education","lineage":["https://openalex.org/I27804330"]},{"id":"https://openalex.org/I911458345","display_name":"Amsterdam UMC Location Vrije Universiteit Amsterdam","ror":"https://ror.org/00q6h8f30","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I4210151833","https://openalex.org/I911458345"]}],"countries":["NL","US"],"is_corresponding":false,"raw_author_name":"Mohammed El-Kebir","raw_affiliation_strings":["1 Life Sciences, Centrum Wiskunde & Informatica (CWI), Amsterdam, The Netherlands,","2 Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands,","3 Center for Computational Molecular Biology, Brown University, Providence, RI, USA,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Life Sciences, Centrum Wiskunde & Informatica (CWI), Amsterdam, The Netherlands,","institution_ids":["https://openalex.org/I1341640284"]},{"raw_affiliation_string":"2 Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands,","institution_ids":["https://openalex.org/I911458345"]},{"raw_affiliation_string":"3 Center for Computational Molecular Biology, Brown University, Providence, RI, USA,","institution_ids":["https://openalex.org/I27804330"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011474849","display_name":"Hayssam Soueidan","orcid":null},"institutions":[{"id":"https://openalex.org/I2898336195","display_name":"The Netherlands Cancer Institute","ror":"https://ror.org/03xqtf034","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2898336195"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Hayssam Soueidan","raw_affiliation_strings":["4 Computational Cancer Biology, The Netherlands Cancer Institute, Amsterdam, The Netherlands,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"4 Computational Cancer Biology, The Netherlands Cancer Institute, Amsterdam, The Netherlands,","institution_ids":["https://openalex.org/I2898336195"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074819291","display_name":"Thomas Hume","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I15057530","display_name":"Universit\u00e9 de Bordeaux","ror":"https://ror.org/057qpr032","country_code":"FR","type":"education","lineage":["https://openalex.org/I15057530"]},{"id":"https://openalex.org/I4210142254","display_name":"Laboratoire Bordelais de Recherche en Informatique","ror":"https://ror.org/03adqg323","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4210142254","https://openalex.org/I4210159245","https://openalex.org/I4210160189"]},{"id":"https://openalex.org/I4210160189","display_name":"Institut Polytechnique de Bordeaux","ror":"https://ror.org/054qv7y42","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210160189"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Thomas Hume","raw_affiliation_strings":["5 Univ. Bordeaux, CBiB, 33000 Bordeaux, France,","6 Univ. Bordeaux, CNRS/LaBRI, 33405 Talence, France,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"5 Univ. Bordeaux, CBiB, 33000 Bordeaux, France,","institution_ids":["https://openalex.org/I15057530"]},{"raw_affiliation_string":"6 Univ. Bordeaux, CNRS/LaBRI, 33405 Talence, France,","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4210142254","https://openalex.org/I4210160189"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043906941","display_name":"Daniela Bei\u00dfer","orcid":"https://orcid.org/0000-0002-0679-6631"},"institutions":[{"id":"https://openalex.org/I62318514","display_name":"University of Duisburg-Essen","ror":"https://ror.org/04mz5ra38","country_code":"DE","type":"education","lineage":["https://openalex.org/I62318514"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Daniela Beisser","raw_affiliation_strings":["7 Genome Informatics, Institute of Human Genetics, University Hospital Essen, University of Duisburg-Essen,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"7 Genome Informatics, Institute of Human Genetics, University Hospital Essen, University of Duisburg-Essen,","institution_ids":["https://openalex.org/I62318514"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070610653","display_name":"Marcus Dittrich","orcid":"https://orcid.org/0000-0002-7726-5491"},"institutions":[{"id":"https://openalex.org/I25974101","display_name":"University of W\u00fcrzburg","ror":"https://ror.org/00fbnyb24","country_code":"DE","type":"education","lineage":["https://openalex.org/I25974101"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Marcus Dittrich","raw_affiliation_strings":["8 Department of Bioinformatics, Biocenter, University of W\u00fcrzburg, W\u00fcrzburg, Germany,","9 Institute of Human Genetics, University of W\u00fcrzburg, W\u00fcrzburg, Germany and"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"8 Department of Bioinformatics, Biocenter, University of W\u00fcrzburg, W\u00fcrzburg, Germany,","institution_ids":["https://openalex.org/I25974101"]},{"raw_affiliation_string":"9 Institute of Human Genetics, University of W\u00fcrzburg, W\u00fcrzburg, Germany and","institution_ids":["https://openalex.org/I25974101"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078146941","display_name":"Tobias M\u00fcller","orcid":"https://orcid.org/0000-0003-3035-7070"},"institutions":[{"id":"https://openalex.org/I25974101","display_name":"University of W\u00fcrzburg","ror":"https://ror.org/00fbnyb24","country_code":"DE","type":"education","lineage":["https://openalex.org/I25974101"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Tobias M\u00fcller","raw_affiliation_strings":["8 Department of Bioinformatics, Biocenter, University of W\u00fcrzburg, W\u00fcrzburg, Germany,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"8 Department of Bioinformatics, Biocenter, University of W\u00fcrzburg, W\u00fcrzburg, Germany,","institution_ids":["https://openalex.org/I25974101"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036752760","display_name":"Guillaume Blin","orcid":"https://orcid.org/0000-0002-0708-0838"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I15057530","display_name":"Universit\u00e9 de Bordeaux","ror":"https://ror.org/057qpr032","country_code":"FR","type":"education","lineage":["https://openalex.org/I15057530"]},{"id":"https://openalex.org/I4210142254","display_name":"Laboratoire Bordelais de Recherche en Informatique","ror":"https://ror.org/03adqg323","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4210142254","https://openalex.org/I4210159245","https://openalex.org/I4210160189"]},{"id":"https://openalex.org/I4210160189","display_name":"Institut Polytechnique de Bordeaux","ror":"https://ror.org/054qv7y42","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210160189"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Guillaume Blin","raw_affiliation_strings":["6 Univ. Bordeaux, CNRS/LaBRI, 33405 Talence, France,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"6 Univ. Bordeaux, CNRS/LaBRI, 33405 Talence, France,","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4210142254","https://openalex.org/I4210160189"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108522619","display_name":"Jaap Heringa","orcid":null},"institutions":[{"id":"https://openalex.org/I911458345","display_name":"Amsterdam UMC Location Vrije Universiteit Amsterdam","ror":"https://ror.org/00q6h8f30","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I4210151833","https://openalex.org/I911458345"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Jaap Heringa","raw_affiliation_strings":["2 Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"2 Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands,","institution_ids":["https://openalex.org/I911458345"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073536063","display_name":"Macha Nikolski","orcid":"https://orcid.org/0000-0001-6059-577X"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I15057530","display_name":"Universit\u00e9 de Bordeaux","ror":"https://ror.org/057qpr032","country_code":"FR","type":"education","lineage":["https://openalex.org/I15057530"]},{"id":"https://openalex.org/I4210142254","display_name":"Laboratoire Bordelais de Recherche en Informatique","ror":"https://ror.org/03adqg323","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4210142254","https://openalex.org/I4210159245","https://openalex.org/I4210160189"]},{"id":"https://openalex.org/I4210160189","display_name":"Institut Polytechnique de Bordeaux","ror":"https://ror.org/054qv7y42","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210160189"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Macha Nikolski","raw_affiliation_strings":["5 Univ. Bordeaux, CBiB, 33000 Bordeaux, France,","6 Univ. Bordeaux, CNRS/LaBRI, 33405 Talence, France,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"5 Univ. Bordeaux, CBiB, 33000 Bordeaux, France,","institution_ids":["https://openalex.org/I15057530"]},{"raw_affiliation_string":"6 Univ. Bordeaux, CNRS/LaBRI, 33405 Talence, France,","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4210142254","https://openalex.org/I4210160189"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020129085","display_name":"Lodewyk F.A. Wessels","orcid":"https://orcid.org/0000-0002-1656-6995"},"institutions":[{"id":"https://openalex.org/I2898336195","display_name":"The Netherlands Cancer Institute","ror":"https://ror.org/03xqtf034","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I2898336195"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Lodewyk F. A. Wessels","raw_affiliation_strings":["4 Computational Cancer Biology, The Netherlands Cancer Institute, Amsterdam, The Netherlands,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"4 Computational Cancer Biology, The Netherlands Cancer Institute, Amsterdam, The Netherlands,","institution_ids":["https://openalex.org/I2898336195"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029642674","display_name":"Gunnar W. Klau","orcid":"https://orcid.org/0000-0002-6340-0090"},"institutions":[{"id":"https://openalex.org/I1326498283","display_name":"Institut national de recherche en sciences et technologies du num\u00e9rique","ror":"https://ror.org/02kvxyf05","country_code":"FR","type":"government","lineage":["https://openalex.org/I1326498283"]},{"id":"https://openalex.org/I1341640284","display_name":"Centrum Wiskunde & Informatica","ror":"https://ror.org/00x7ekv49","country_code":"NL","type":"facility","lineage":["https://openalex.org/I1341640284","https://openalex.org/I2800991832","https://openalex.org/I4405262988"]},{"id":"https://openalex.org/I911458345","display_name":"Amsterdam UMC Location Vrije Universiteit Amsterdam","ror":"https://ror.org/00q6h8f30","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I4210151833","https://openalex.org/I911458345"]}],"countries":["FR","NL"],"is_corresponding":true,"raw_author_name":"Gunnar W. Klau","raw_affiliation_strings":["1 Life Sciences, Centrum Wiskunde & Informatica (CWI), Amsterdam, The Netherlands,","10 Erable Team, INRIA, Lyon, France","2 Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Life Sciences, Centrum Wiskunde & Informatica (CWI), Amsterdam, The Netherlands,","institution_ids":["https://openalex.org/I1341640284"]},{"raw_affiliation_string":"10 Erable Team, INRIA, Lyon, France","institution_ids":["https://openalex.org/I1326498283"]},{"raw_affiliation_string":"2 Centre for Integrative Bioinformatics VU, VU University Amsterdam, The Netherlands,","institution_ids":["https://openalex.org/I911458345"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":11,"corresponding_author_ids":["https://openalex.org/A5029642674"],"corresponding_institution_ids":["https://openalex.org/I1326498283","https://openalex.org/I1341640284","https://openalex.org/I911458345"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.4135,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.63234632,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"31","issue":"19","first_page":"3147","last_page":"3155"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.5374000072479248,"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":0.5374000072479248,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.1873999983072281,"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.042500000447034836,"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/subnetwork","display_name":"Subnetwork","score":0.8329276442527771},{"id":"https://openalex.org/keywords/interpretability","display_name":"Interpretability","score":0.7359621524810791},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6005256175994873},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5962981581687927},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.5561437010765076},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.533856213092804},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4792066514492035},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.47466281056404114},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3652103543281555},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.30255770683288574},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.23378393054008484},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.17276963591575623},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.11097210645675659}],"concepts":[{"id":"https://openalex.org/C2780186347","wikidata":"https://www.wikidata.org/wiki/Q11414","display_name":"Subnetwork","level":2,"score":0.8329276442527771},{"id":"https://openalex.org/C2781067378","wikidata":"https://www.wikidata.org/wiki/Q17027399","display_name":"Interpretability","level":2,"score":0.7359621524810791},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6005256175994873},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5962981581687927},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.5561437010765076},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.533856213092804},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4792066514492035},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.47466281056404114},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3652103543281555},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.30255770683288574},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.23378393054008484},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.17276963591575623},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.11097210645675659},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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":"D007231","descriptor_name":"Infant, Newborn","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007231","descriptor_name":"Infant, Newborn","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007231","descriptor_name":"Infant, Newborn","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","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":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058504","descriptor_name":"Th17 Cells","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D058504","descriptor_name":"Th17 Cells","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D058504","descriptor_name":"Th17 Cells","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":8,"locations":[{"id":"doi:10.1093/bioinformatics/btv316","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv316","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/19/3147/49035113/bioinformatics_31_19_3147.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:26023104","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26023104","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:cwi:oai:cwi.nl:23765","is_oa":false,"landing_page_url":"https://ir.cwi.nl/pub/23765","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 31(19), 3147 - 3155","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:HAL:hal-01248545v1","is_oa":false,"landing_page_url":"https://inria.hal.science/hal-01248545","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2015, 31 (19), &#x27E8;10.1093/bioinformatics/btv316&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:31/19/3147","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/31/19/3147","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"},{"id":"pmh:oai:research.vu.nl:openaire_cris_publications/55d87caf-ba44-41df-b271-503b1b228b37","is_oa":false,"landing_page_url":"https://hdl.handle.net/1871.1/55d87caf-ba44-41df-b271-503b1b228b37","pdf_url":null,"source":{"id":"https://openalex.org/S4306401107","display_name":"VU Research Portal","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"El-Kebir, M, Soueidan, H, Hume, T, Beisser, D, Dittrich, M, M\u00fcller, T, Blin, G, Heringa, J, Nikolski, M, Wessels, L F A & Klau, G W 2015, 'xHeinz: an algorithm for mining cross-species network modules under a flexible conservation model', Bioinformatics, vol. 31, no. 19, pp. 3147-3155. https://doi.org/10.1093/bioinformatics/btv316","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:research.vu.nl:publications/55d87caf-ba44-41df-b271-503b1b228b37","is_oa":false,"landing_page_url":"http://www.scopus.com/inward/citedby.url?scp=84943382811&partnerID=8YFLogxK","pdf_url":null,"source":{"id":"https://openalex.org/S4306401107","display_name":"VU Research Portal","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"El-Kebir, M, Soueidan, H, Hume, T, Beisser, D, Dittrich, M, M\u00fcller, T, Blin, G, Heringa, J, Nikolski, M, Wessels, L F A & Klau, G W 2015, 'xHeinz: an algorithm for mining cross-species network modules under a flexible conservation model', Bioinformatics, vol. 31, no. 19, pp. 3147-3155. https://doi.org/10.1093/bioinformatics/btv316","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:vu:oai:research.vu.nl:publications/55d87caf-ba44-41df-b271-503b1b228b37","is_oa":false,"landing_page_url":"https://research.vu.nl/en/publications/55d87caf-ba44-41df-b271-503b1b228b37","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 31(19), 3147 - 3155. Oxford University Press","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv316","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv316","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/19/3147/49035113/bioinformatics_31_19_3147.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":0.75,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2130336419.pdf"},"referenced_works_count":48,"referenced_works":["https://openalex.org/W154688724","https://openalex.org/W1546952499","https://openalex.org/W1645591373","https://openalex.org/W1738892734","https://openalex.org/W1759757419","https://openalex.org/W1974259787","https://openalex.org/W1975487256","https://openalex.org/W1986938885","https://openalex.org/W1987067203","https://openalex.org/W1987628377","https://openalex.org/W1990453950","https://openalex.org/W1994315436","https://openalex.org/W2002792327","https://openalex.org/W2009649694","https://openalex.org/W2018487190","https://openalex.org/W2021340905","https://openalex.org/W2025802927","https://openalex.org/W2027699993","https://openalex.org/W2032188826","https://openalex.org/W2036012609","https://openalex.org/W2036925986","https://openalex.org/W2040847667","https://openalex.org/W2067358413","https://openalex.org/W2078281118","https://openalex.org/W2078957007","https://openalex.org/W2081496541","https://openalex.org/W2088367672","https://openalex.org/W2090814021","https://openalex.org/W2091451666","https://openalex.org/W2094990294","https://openalex.org/W2098527037","https://openalex.org/W2102158172","https://openalex.org/W2104843251","https://openalex.org/W2105642898","https://openalex.org/W2105924489","https://openalex.org/W2109363337","https://openalex.org/W2112263459","https://openalex.org/W2112811019","https://openalex.org/W2131371764","https://openalex.org/W2136371643","https://openalex.org/W2140239055","https://openalex.org/W2148043549","https://openalex.org/W2158217645","https://openalex.org/W2167966811","https://openalex.org/W2171662214","https://openalex.org/W4210290733","https://openalex.org/W4242301326","https://openalex.org/W6677156225"],"related_works":["https://openalex.org/W15348386","https://openalex.org/W2478888221","https://openalex.org/W2032799661","https://openalex.org/W2095452756","https://openalex.org/W2096259797","https://openalex.org/W2521885831","https://openalex.org/W1979360205","https://openalex.org/W2494457055","https://openalex.org/W2130939068","https://openalex.org/W3163717165"],"abstract_inverted_index":{"MOTIVATION:":[0],"Integrative":[1],"network":[2],"analysis":[3],"methods":[4],"provide":[5],"robust":[6],"interpretations":[7],"of":[8,71,115,143,151,162,168,216,231],"differential":[9,135],"high-throughput":[10],"molecular":[11,40],"profile":[12],"measurements.":[13],"They":[14],"are":[15,42,55,82,107,113,242,262],"often":[16],"used":[17],"in":[18,68,127,166,184,200,253],"a":[19,69,98,124,128,140,148,206,248],"biomedical":[20],"context-to":[21],"generate":[22],"novel":[23],"hypotheses":[24],"about":[25],"the":[26,53,66,72,160,163,193,213],"underlying":[27,39,195],"cellular":[28,50],"processes":[29],"or":[30,49,179],"to":[31,59,90,92,156,191],"derive":[32],"biomarkers":[33],"for":[34,84,101,118,159],"classification":[35],"and":[36,45,137,203,223,240,246],"subtyping.":[37],"The":[38],"profiles":[41],"frequently":[43],"measured":[44],"validated":[46],"on":[47],"animal":[48],"models.":[51],"Therefore":[52],"results":[54],"not":[56],"immediately":[57],"transferable":[58],"human.":[60,204],"In":[61],"particular,":[62],"this":[63],"is":[64,219],"also":[65,88],"case":[67],"study":[70],"recently":[73],"discovered":[74],"interleukin-17":[75],"producing":[76],"helper":[77],"T":[78,197],"cells":[79],"(Th17),":[80],"which":[81,121,153],"fundamental":[83],"anti-microbial":[85],"immunity":[86],"but":[87],"known":[89],"contribute":[91],"autoimmune":[93],"diseases.":[94],"RESULTS:":[95],"We":[96,146,171,187],"propose":[97,147,172],"mathematical":[99],"model":[100],"finding":[102],"active":[103,182],"subnetwork":[104,126],"modules":[105,165,183],"that":[106,175,212],"conserved":[108,181,220],"between":[109,221],"two":[110],"species.":[111],"These":[112],"sets":[114],"genes,":[116],"one":[117],"each":[119],"species,":[120],"(i)":[122],"induce":[123],"connected":[125],"species-specific":[129],"interaction":[130],"network,":[131],"(ii)":[132],"show":[133],"overall":[134],"behavior":[136],"(iii)":[138],"contain":[139],"large":[141],"number":[142],"orthologous":[144],"genes.":[145],"flexible":[149],"notion":[150],"conservation,":[152],"turns":[154],"out":[155],"be":[157],"crucial":[158],"quality":[161],"resulting":[164],"terms":[167],"biological":[169,208],"interpretability.":[170],"an":[173,229],"algorithm":[174,190],"finds":[176],"provably":[177],"optimal":[178],"near-optimal":[180],"our":[185,189,232],"model.":[186],"apply":[188],"understand":[192],"mechanisms":[194],"Th17":[196,217],"cell":[198],"differentiation":[199,218],"both":[201],"mouse":[202],"As":[205],"main":[207],"result,":[209],"we":[210],"find":[211],"key":[214],"regulation":[215],"human":[222],"mouse.":[224],"AVAILABILITY":[225],"AND":[226],"IMPLEMENTATION:":[227],"xHeinz,":[228],"implementation":[230],"algorithm,":[233],"as":[234,236,247],"well":[235],"all":[237],"input":[238],"data":[239,261],"results,":[241],"available":[243,263],"at":[244,251,264],"http://software.cwi.nl/xheinz":[245],"Galaxy":[249],"service":[250],"http://services.cbib.u-bordeaux2.fr/galaxy":[252],"CBiB":[254],"Tools.":[255],"CONTACT:":[256],"gunnar.klau@cwi.nl":[257],"SUPPLEMENTARY":[258],"INFORMATION:":[259],"Supplementary":[260],"Bioinformatics":[265],"online.":[266]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}
