{"id":"https://openalex.org/W2129485525","doi":"https://doi.org/10.1093/bioinformatics/bth112","title":"New methods for joint analysis of biological networks and expression data","display_name":"New methods for joint analysis of biological networks and expression data","publication_year":2004,"publication_date":"2004-07-01","ids":{"openalex":"https://openalex.org/W2129485525","doi":"https://doi.org/10.1093/bioinformatics/bth112","mag":"2129485525","pmid":"https://pubmed.ncbi.nlm.nih.gov/15231545"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bth112","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth112","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/10/1517/650272/bth112.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/20/10/1517/650272/bth112.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062961018","display_name":"Florian Sohler","orcid":"https://orcid.org/0000-0003-4276-0238"},"institutions":[{"id":"https://openalex.org/I8204097","display_name":"Ludwig-Maximilians-Universit\u00e4t M\u00fcnchen","ror":"https://ror.org/05591te55","country_code":"DE","type":"education","lineage":["https://openalex.org/I8204097"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Florian Sohler","raw_affiliation_strings":["Institut f\u00fcr Informatik, Ludwig-Maximilians-Universit\u00e4t M\u00fcnchen, Amalienstrasse 17, 80333 M\u00fcnchen, Germany. florian.sohler@ifi.lmu.edu","Institut f\u00fcr Informatik, Ludwig-Maximilians-Universit\u00e4t M\u00fcnchen, Amalienstra\u00dfe 17, 80333 M\u00fcnchen, Germany#TAB#"],"affiliations":[{"raw_affiliation_string":"Institut f\u00fcr Informatik, Ludwig-Maximilians-Universit\u00e4t M\u00fcnchen, Amalienstrasse 17, 80333 M\u00fcnchen, Germany. florian.sohler@ifi.lmu.edu","institution_ids":["https://openalex.org/I8204097"]},{"raw_affiliation_string":"Institut f\u00fcr Informatik, Ludwig-Maximilians-Universit\u00e4t M\u00fcnchen, Amalienstra\u00dfe 17, 80333 M\u00fcnchen, Germany#TAB#","institution_ids":["https://openalex.org/I8204097"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084535869","display_name":"Daniel Hanisch","orcid":null},"institutions":[{"id":"https://openalex.org/I4210098248","display_name":"Fraunhofer Institute for Algorithms and Scientific Computing","ror":"https://ror.org/00trw9c49","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210098248","https://openalex.org/I4923324"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Daniel Hanisch","raw_affiliation_strings":["Institute for Algorithms and Scientific Computing (SCAI), Fraunhofer Gesellschaft, Schloss Birlinghoven, 53754 Sankt Augustin, Germany","Institute for Algorithms and Scientific Computing (SCAI), Fraunhofer Gesellschaft, Schloss Birlinghoven, 53754 Sankt Augustin, Germany#TAB#"],"affiliations":[{"raw_affiliation_string":"Institute for Algorithms and Scientific Computing (SCAI), Fraunhofer Gesellschaft, Schloss Birlinghoven, 53754 Sankt Augustin, Germany","institution_ids":["https://openalex.org/I4210098248"]},{"raw_affiliation_string":"Institute for Algorithms and Scientific Computing (SCAI), Fraunhofer Gesellschaft, Schloss Birlinghoven, 53754 Sankt Augustin, Germany#TAB#","institution_ids":["https://openalex.org/I4210098248"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068859428","display_name":"Ralf Zimmer","orcid":"https://orcid.org/0000-0003-1439-2327"},"institutions":[{"id":"https://openalex.org/I8204097","display_name":"Ludwig-Maximilians-Universit\u00e4t M\u00fcnchen","ror":"https://ror.org/05591te55","country_code":"DE","type":"education","lineage":["https://openalex.org/I8204097"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Ralf Zimmer","raw_affiliation_strings":["Institut fr Informatik, Ludwig-Maximilians-Universitt Mnchen, Amalienstrae 17, 80333 Mnchen, Germany","Institut f\u00fcr Informatik, Ludwig-Maximilians-Universit\u00e4t M\u00fcnchen, Amalienstra\u00dfe 17, 80333 M\u00fcnchen, Germany#TAB#"],"affiliations":[{"raw_affiliation_string":"Institut fr Informatik, Ludwig-Maximilians-Universitt Mnchen, Amalienstrae 17, 80333 Mnchen, Germany","institution_ids":["https://openalex.org/I8204097"]},{"raw_affiliation_string":"Institut f\u00fcr Informatik, Ludwig-Maximilians-Universit\u00e4t M\u00fcnchen, Amalienstra\u00dfe 17, 80333 M\u00fcnchen, Germany#TAB#","institution_ids":["https://openalex.org/I8204097"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5062961018"],"corresponding_institution_ids":["https://openalex.org/I8204097"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":3.4969,"has_fulltext":true,"cited_by_count":72,"citation_normalized_percentile":{"value":0.93231515,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"20","issue":"10","first_page":"1517","last_page":"1521"},"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9983999729156494,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9983999729156494,"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/computer-science","display_name":"Computer science","score":0.7727541327476501},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.6971157789230347},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6163952350616455},{"id":"https://openalex.org/keywords/biological-data","display_name":"Biological data","score":0.5597864389419556},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5488348007202148},{"id":"https://openalex.org/keywords/expression","display_name":"Expression (computer science)","score":0.5000591278076172},{"id":"https://openalex.org/keywords/biological-pathway","display_name":"Biological pathway","score":0.4509727656841278},{"id":"https://openalex.org/keywords/throughput","display_name":"Throughput","score":0.43977978825569153},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.33563297986984253},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3348642587661743},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.32018619775772095},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1873689889907837},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.1856192946434021},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15041086077690125},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.14779573678970337},{"id":"https://openalex.org/keywords/wireless","display_name":"Wireless","score":0.13002434372901917}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7727541327476501},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.6971157789230347},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6163952350616455},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.5597864389419556},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5488348007202148},{"id":"https://openalex.org/C90559484","wikidata":"https://www.wikidata.org/wiki/Q778379","display_name":"Expression (computer science)","level":2,"score":0.5000591278076172},{"id":"https://openalex.org/C9927688","wikidata":"https://www.wikidata.org/wiki/Q4915012","display_name":"Biological pathway","level":4,"score":0.4509727656841278},{"id":"https://openalex.org/C157764524","wikidata":"https://www.wikidata.org/wiki/Q1383412","display_name":"Throughput","level":3,"score":0.43977978825569153},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.33563297986984253},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3348642587661743},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.32018619775772095},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1873689889907837},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.1856192946434021},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15041086077690125},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.14779573678970337},{"id":"https://openalex.org/C555944384","wikidata":"https://www.wikidata.org/wiki/Q249","display_name":"Wireless","level":2,"score":0.13002434372901917},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","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},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","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":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":"Q000502","qualifier_name":"physiology","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":"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":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bth112","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth112","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/10/1517/650272/bth112.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:15231545","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15231545","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:fraunhofer.de:N-37663","is_oa":false,"landing_page_url":"http://publica.fraunhofer.de/documents/N-37663.html","pdf_url":null,"source":{"id":"https://openalex.org/S4306400801","display_name":"Publikationsdatenbank der Fraunhofer-Gesellschaft (Fraunhofer-Gesellschaft)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4923324","host_organization_name":"Fraunhofer-Gesellschaft","host_organization_lineage":["https://openalex.org/I4923324"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Fraunhofer SCAI","raw_type":"Journal Article"},{"id":"pmh:oai:publica.fraunhofer.de:publica/205595","is_oa":false,"landing_page_url":"https://publica.fraunhofer.de/handle/publica/205595","pdf_url":null,"source":{"id":"https://openalex.org/S4306400318","display_name":"Fraunhofer-Publica (Fraunhofer-Gesellschaft)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4923324","host_organization_name":"Fraunhofer-Gesellschaft","host_organization_lineage":["https://openalex.org/I4923324"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"journal article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bth112","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth112","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/10/1517/650272/bth112.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":[{"id":"https://openalex.org/G5168466499","display_name":null,"funder_award_id":"Project","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"}],"funders":[{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2129485525.pdf","grobid_xml":"https://content.openalex.org/works/W2129485525.grobid-xml"},"referenced_works_count":23,"referenced_works":["https://openalex.org/W187269661","https://openalex.org/W1533179050","https://openalex.org/W1820624545","https://openalex.org/W1938420390","https://openalex.org/W1951330234","https://openalex.org/W1971171487","https://openalex.org/W1982657570","https://openalex.org/W2009341227","https://openalex.org/W2030712030","https://openalex.org/W2062867942","https://openalex.org/W2099221935","https://openalex.org/W2100083453","https://openalex.org/W2109327803","https://openalex.org/W2112811019","https://openalex.org/W2126602684","https://openalex.org/W2137786672","https://openalex.org/W2144317357","https://openalex.org/W2146264532","https://openalex.org/W2155320925","https://openalex.org/W4230174249","https://openalex.org/W4232839233","https://openalex.org/W4246066782","https://openalex.org/W4246925013"],"related_works":["https://openalex.org/W2155492529","https://openalex.org/W4252504573","https://openalex.org/W4385510321","https://openalex.org/W2163262592","https://openalex.org/W2945896137","https://openalex.org/W78967844","https://openalex.org/W1603786158","https://openalex.org/W2089099679","https://openalex.org/W2087167584","https://openalex.org/W2173502412"],"abstract_inverted_index":{"Biological":[0],"networks,":[1,9],"such":[2,50,95],"as":[3,96],"protein":[4],"interaction,":[5],"regulatory":[6],"or":[7,16,99],"metabolic":[8],"derived":[10],"from":[11],"public":[12],"databases,":[13],"biological":[14,72,110],"experiments":[15],"text":[17],"mining":[18],"can":[19,108,126],"be":[20,127],"useful":[21],"for":[22],"the":[23,35,47,53,77,106,131],"analysis":[24,133],"of":[25,49,61,85],"high-throughput":[26],"experimental":[27,119],"data.":[28,120],"We":[29],"present":[30],"two":[31],"algorithms":[32],"embedded":[33],"in":[34,42,46,76],"ToPNet":[36,137],"application":[37],"that":[38,89],"show":[39],"promising":[40],"performance":[41],"analyzing":[43],"expression":[44],"data":[45],"context":[48],"networks.":[51],"First,":[52],"Significant":[54],"Area":[55],"Search":[56],"algorithm":[57],"detects":[58],"subnetworks":[59,66],"consisting":[60],"significantly":[62,93],"regulated":[63],"genes.":[64],"These":[65],"often":[67],"provide":[68],"hints":[69],"on":[70],"which":[71],"processes":[73],"are":[74,90],"affected":[75],"measured":[78],"conditions.":[79],"Second,":[80],"Pathway":[81],"Queries":[82],"allow":[83],"detection":[84],"networks":[86,123],"including":[87],"molecules":[88],"not":[91],"necessarily":[92],"regulated,":[94],"transcription":[97],"factors":[98],"signaling":[100],"proteins.":[101],"Moreover,":[102],"using":[103,130],"these":[104],"queries,":[105],"user":[107],"formulate":[109],"hypotheses":[111],"and":[112,124],"check":[113],"their":[114],"validity":[115],"with":[116],"respect":[117],"to":[118],"All":[121],"resulting":[122],"pathways":[125],"explored":[128],"further":[129],"interactive":[132],"tools":[134],"provided":[135],"by":[136],"program.":[138]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":2},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":4},{"year":2012,"cited_by_count":5}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}