{"id":"https://openalex.org/W2060819375","doi":"https://doi.org/10.1186/1471-2105-12-286","title":"Construct and Compare Gene Coexpression Networks with DAPfinder and DAPview","display_name":"Construct and Compare Gene Coexpression Networks with DAPfinder and DAPview","publication_year":2011,"publication_date":"2011-07-14","ids":{"openalex":"https://openalex.org/W2060819375","doi":"https://doi.org/10.1186/1471-2105-12-286","mag":"2060819375","pmid":"https://pubmed.ncbi.nlm.nih.gov/21756334"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-12-286","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-286","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-286","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-286","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5088731604","display_name":"Jeff Skinner","orcid":"https://orcid.org/0000-0001-5697-0442"},"institutions":[{"id":"https://openalex.org/I4210134534","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210134534"]},{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jeff Skinner","raw_affiliation_strings":["Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, Maryland, USA","Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, Maryland, USA","institution_ids":["https://openalex.org/I4210134534"]},{"raw_affiliation_string":"Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, USA","institution_ids":["https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062516537","display_name":"Yuri Kotliarov","orcid":"https://orcid.org/0000-0002-6558-8883"},"institutions":[{"id":"https://openalex.org/I4210140884","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884"]},{"id":"https://openalex.org/I4210110767","display_name":"National Institute of Neurological Disorders and Stroke","ror":"https://ror.org/01s5ya894","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210110767"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yuri Kotliarov","raw_affiliation_strings":["Neuro-Oncology Branch (CHIAI), National Cancer Institute (NCI), National Institutes of Neurological Disorder and Stroke (NINDS), National Institutes if Health (NIH), Bethesda, Maryland, USA","Neuro-Oncology Branch (CHIAI), National Cancer Institute (NCI), National Institutes of Neurological Disorder and Stroke (NINDS), National Institutes if Health (NIH), Bethesda, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Neuro-Oncology Branch (CHIAI), National Cancer Institute (NCI), National Institutes of Neurological Disorder and Stroke (NINDS), National Institutes if Health (NIH), Bethesda, Maryland, USA","institution_ids":["https://openalex.org/I4210110767","https://openalex.org/I4210140884"]},{"raw_affiliation_string":"Neuro-Oncology Branch (CHIAI), National Cancer Institute (NCI), National Institutes of Neurological Disorder and Stroke (NINDS), National Institutes if Health (NIH), Bethesda, USA","institution_ids":["https://openalex.org/I4210110767","https://openalex.org/I4210140884"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004831674","display_name":"Sudhir Varma","orcid":"https://orcid.org/0000-0002-4096-4782"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210134534","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210134534"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sudhir Varma","raw_affiliation_strings":["Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, Maryland, USA","Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, Maryland, USA","institution_ids":["https://openalex.org/I4210134534"]},{"raw_affiliation_string":"Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, USA","institution_ids":["https://openalex.org/I1299303238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042513880","display_name":"Karina L. Mine","orcid":null},"institutions":[{"id":"https://openalex.org/I88273585","display_name":"Universidade Federal de S\u00e3o Paulo","ror":"https://ror.org/02k5swt12","country_code":"BR","type":"education","lineage":["https://openalex.org/I88273585"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Karina L Mine","raw_affiliation_strings":["Setor de Imunogen\u00e9tica, Departamento de Pediatria, Universidade Federal de S\u00e3o Paulo (UNIFESP), S\u00e3o Paulo, Brasil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Setor de Imunogen\u00e9tica, Departamento de Pediatria, Universidade Federal de S\u00e3o Paulo (UNIFESP), S\u00e3o Paulo, Brasil","institution_ids":["https://openalex.org/I88273585"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017867664","display_name":"Anatoly Yambartsev","orcid":"https://orcid.org/0000-0002-8398-1347"},"institutions":[{"id":"https://openalex.org/I17974374","display_name":"Universidade de S\u00e3o Paulo","ror":"https://ror.org/036rp1748","country_code":"BR","type":"education","lineage":["https://openalex.org/I17974374"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Anatoly Yambartsev","raw_affiliation_strings":["Instituto de Matem\u00e1tica e Estat\u00edstica (IME), Universidade de S\u00e3o Paulo (USP), S\u00e3o Paulo, Brasil","Instituto de Matem\u00e1tica e Estat\u00edstica - IME, Universidade de S\u00e3o Paulo - USP, S\u00e3o Paulo, Brasil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Instituto de Matem\u00e1tica e Estat\u00edstica (IME), Universidade de S\u00e3o Paulo (USP), S\u00e3o Paulo, Brasil","institution_ids":["https://openalex.org/I17974374"]},{"raw_affiliation_string":"Instituto de Matem\u00e1tica e Estat\u00edstica - IME, Universidade de S\u00e3o Paulo - USP, S\u00e3o Paulo, Brasil","institution_ids":["https://openalex.org/I17974374"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038941421","display_name":"Richard Simon","orcid":null},"institutions":[{"id":"https://openalex.org/I4210140884","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884"]},{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Richard Simon","raw_affiliation_strings":["Biometric Research Branch (BRB), Division of Cancer Treatment and Diagnosis (DCTD), National Cancer Institute (NCI), National Institutes if Health (NIH), Bethesda, Maryland, USA","Biometric Research Branch (BRB), Division of Cancer Treatment and Diagnosis (DCTD), National Cancer Institute (NCI), National Institutes if Health (NIH), Bethesda, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biometric Research Branch (BRB), Division of Cancer Treatment and Diagnosis (DCTD), National Cancer Institute (NCI), National Institutes if Health (NIH), Bethesda, Maryland, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210140884"]},{"raw_affiliation_string":"Biometric Research Branch (BRB), Division of Cancer Treatment and Diagnosis (DCTD), National Cancer Institute (NCI), National Institutes if Health (NIH), Bethesda, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210140884"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078405226","display_name":"Yentram Huyen","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210134534","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210134534"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yentram Huyen","raw_affiliation_strings":["Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, Maryland, USA","Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, Maryland, USA","institution_ids":["https://openalex.org/I4210134534"]},{"raw_affiliation_string":"Bioinformatics and Computational Biosciences Branch (BCBB), Office of Cyber Infrastructure and Computational Biology (OCICB), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, USA","institution_ids":["https://openalex.org/I1299303238"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091484858","display_name":"Andrey Morgun","orcid":"https://orcid.org/0000-0002-8924-6108"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210134534","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210134534"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrey Morgun","raw_affiliation_strings":["\"Ghost Lab\", T-Cell Tolerance and Memory Section (TCTMS), Laboratory of Cellular and Molecular Immunology (LCMI), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, Maryland, USA","Ghost Lab, T-Cell Tolerance and Memory Section (TCTMS), Laboratory of Cellular and Molecular Immunology (LCMI), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"\"Ghost Lab\", T-Cell Tolerance and Memory Section (TCTMS), Laboratory of Cellular and Molecular Immunology (LCMI), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, Maryland, USA","institution_ids":["https://openalex.org/I4210134534"]},{"raw_affiliation_string":"Ghost Lab, T-Cell Tolerance and Memory Section (TCTMS), Laboratory of Cellular and Molecular Immunology (LCMI), National Institute of Allergy and Infectious Disease (NIAID), National Institutes if Health (NIH), Bethesda, USA","institution_ids":["https://openalex.org/I1299303238"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5088731604"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210134534"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":1.0642,"has_fulltext":true,"cited_by_count":21,"citation_normalized_percentile":{"value":0.75890237,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"12","issue":"1","first_page":"286","last_page":"286"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.6983000040054321,"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":0.6983000040054321,"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":0.09669999778270721,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.0348999984562397,"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/pairwise-comparison","display_name":"Pairwise comparison","score":0.7566816806793213},{"id":"https://openalex.org/keywords/construct","display_name":"Construct (python library)","score":0.742165207862854},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6135481595993042},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.6093775033950806},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5515411496162415},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.5494451522827148},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5293684005737305},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.38572758436203003},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3602404296398163},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3503662347793579},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.34390121698379517},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.20837169885635376},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.17595279216766357}],"concepts":[{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.7566816806793213},{"id":"https://openalex.org/C2780801425","wikidata":"https://www.wikidata.org/wiki/Q5164392","display_name":"Construct (python library)","level":2,"score":0.742165207862854},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6135481595993042},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.6093775033950806},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5515411496162415},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.5494451522827148},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5293684005737305},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.38572758436203003},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3602404296398163},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3503662347793579},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.34390121698379517},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.20837169885635376},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.17595279216766357},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D005910","descriptor_name":"Glioma","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005910","descriptor_name":"Glioma","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005910","descriptor_name":"Glioma","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"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":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"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},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":8,"locations":[{"id":"doi:10.1186/1471-2105-12-286","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-286","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-286","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21756334","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21756334","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:www.producao.usp.br:BDPI/16676","is_oa":false,"landing_page_url":"http://producao.usp.br/handle/BDPI/16676","pdf_url":null,"source":{"id":"https://openalex.org/S4306402433","display_name":"Portuguese National Funding Agency for Science, Research and Technology (RCAAP Project by FCT)","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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"reponame:Reposit\u00f3rio Institucional da USP","raw_type":"publishedVersion"},{"id":"pmh:002874859","is_oa":true,"landing_page_url":"http://dx.doi.org/10.1186/1471-2105-12-286","pdf_url":null,"source":{"id":"https://openalex.org/S4306402641","display_name":"LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Cient\u00edficas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4383465926","host_organization_name":"LA Referencia","host_organization_lineage":["https://openalex.org/I4383465926"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"reponame:Reposit\u00f3rio Institucional da USP (Biblioteca Digital da Produ\u00e7\u00e3o Intelectual)","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:americanae.aecid.es:3191800","is_oa":true,"landing_page_url":"http://americanae.aecid.es/americanae/es/registros/registro.do?tipoRegistro=MTD&idBib=3191800","pdf_url":null,"source":{"id":"https://openalex.org/S4306400786","display_name":"Americanae (AECID Library)","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"reponame:Reposit\u00f3rio Institucional da UNIFESP","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:doaj.org/article:e24c959ac7b244a2a4f00a5438f6c940","is_oa":false,"landing_page_url":"https://doaj.org/article/e24c959ac7b244a2a4f00a5438f6c940","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","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":"BMC Bioinformatics, Vol 12, Iss 1, p 286 (2011)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2157377","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3149583","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:repositorio.unifesp.br:11600/33885","is_oa":true,"landing_page_url":"http://repositorio.unifesp.br/handle/11600/33885","pdf_url":null,"source":{"id":"https://openalex.org/S4306402641","display_name":"LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Cient\u00edficas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4383465926","host_organization_name":"LA Referencia","host_organization_lineage":["https://openalex.org/I4383465926"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"instacron:UNIFESP","raw_type":"info:eu-repo/semantics/publishedVersion"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-12-286","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-286","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-286","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC 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"},{"id":"https://openalex.org/F4320337349","display_name":"NIH Office of the Director","ror":"https://ror.org/00fj8a872"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2060819375.pdf","grobid_xml":"https://content.openalex.org/works/W2060819375.grobid-xml"},"referenced_works_count":41,"referenced_works":["https://openalex.org/W39773280","https://openalex.org/W1596515083","https://openalex.org/W1843806100","https://openalex.org/W1964895626","https://openalex.org/W1973071934","https://openalex.org/W1991077173","https://openalex.org/W2014490965","https://openalex.org/W2041348329","https://openalex.org/W2044525257","https://openalex.org/W2046885348","https://openalex.org/W2056780782","https://openalex.org/W2059048157","https://openalex.org/W2074089196","https://openalex.org/W2098341282","https://openalex.org/W2105381419","https://openalex.org/W2106620396","https://openalex.org/W2110065044","https://openalex.org/W2114954827","https://openalex.org/W2116811581","https://openalex.org/W2121195642","https://openalex.org/W2123775239","https://openalex.org/W2125905177","https://openalex.org/W2127823872","https://openalex.org/W2127981279","https://openalex.org/W2131987814","https://openalex.org/W2136541538","https://openalex.org/W2136734008","https://openalex.org/W2137531873","https://openalex.org/W2139807849","https://openalex.org/W2140375000","https://openalex.org/W2142160388","https://openalex.org/W2154053567","https://openalex.org/W2154097321","https://openalex.org/W2157795344","https://openalex.org/W2163296115","https://openalex.org/W2165133998","https://openalex.org/W2317320087","https://openalex.org/W3099289621","https://openalex.org/W4242743062","https://openalex.org/W4244344354","https://openalex.org/W4294107304"],"related_works":["https://openalex.org/W2366107444","https://openalex.org/W2487162673","https://openalex.org/W2942366970","https://openalex.org/W2793211469","https://openalex.org/W4388145910","https://openalex.org/W2949152769","https://openalex.org/W4372354731","https://openalex.org/W1976205134","https://openalex.org/W2381570729","https://openalex.org/W2562400057"],"abstract_inverted_index":{"BACKGROUND:":[0],"DAPfinder":[1,76],"and":[2,13,51,66,84],"DAPview":[3],"are":[4,57],"novel":[5],"BRB-ArrayTools":[6],"plug-ins":[7],"to":[8],"construct":[9],"gene":[10],"coexpression":[11,20],"networks":[12],"identify":[14],"significant":[15,26],"differences":[16],"in":[17,28,60],"pairwise":[18],"gene-gene":[19,29,45],"between":[21],"two":[22],"phenotypes.":[23],"RESULTS:":[24],"Each":[25],"difference":[27],"association":[30,46],"represents":[31],"a":[32,78],"Differentially":[33],"Associated":[34],"Pair":[35],"(DAP).":[36],"Our":[37],"tools":[38],"include":[39],"several":[40],"choices":[41],"of":[42,63,72,86],"filtering":[43],"methods,":[44],"metrics,":[47],"statistical":[48],"testing":[49],"methods":[50],"multiple":[52],"comparison":[53,85],"adjustments.":[54],"Network":[55],"results":[56],"easily":[58],"displayed":[59],"Cytoscape.":[61],"Analyses":[62],"glioma":[64],"experiments":[65],"microarray":[67],"simulations":[68],"demonstrate":[69],"the":[70],"utility":[71],"these":[73],"tools.":[74],"CONCLUSIONS:":[75],"is":[77],"new":[79],"friendly-user":[80],"tool":[81],"for":[82],"reconstruction":[83],"biological":[87],"networks.":[88]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":2}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}
