{"id":"https://openalex.org/W2018873261","doi":"https://doi.org/10.1186/s12859-014-0386-y","title":"Finding gene regulatory network candidates using the gene expression knowledge base","display_name":"Finding gene regulatory network candidates using the gene expression knowledge base","publication_year":2014,"publication_date":"2014-12-01","ids":{"openalex":"https://openalex.org/W2018873261","doi":"https://doi.org/10.1186/s12859-014-0386-y","mag":"2018873261","pmid":"https://pubmed.ncbi.nlm.nih.gov/25490885"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-014-0386-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-014-0386-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-014-0386-y","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/s12859-014-0386-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5008629865","display_name":"Aravind Venkatesan","orcid":"https://orcid.org/0000-0003-4019-1940"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Aravind Venkatesan","raw_affiliation_strings":["Department of Biology, Norwegian University of Science and Technology (NTNU), N-7491, Trondheim, Norway. aravind.venkatesan@ntnu.no","Department of Biology, Norwegian University of science and Technology (NTNU), Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Norwegian University of Science and Technology (NTNU), N-7491, Trondheim, Norway. aravind.venkatesan@ntnu.no","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Department of Biology, Norwegian University of science and Technology (NTNU), Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085297755","display_name":"Sushil Tripathi","orcid":"https://orcid.org/0000-0003-0032-3574"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Sushil Tripathi","raw_affiliation_strings":["Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), N-7489, Trondheim, Norway. sushil.tripathi@ntnu.no","Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU) , Trondheim , Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), N-7489, Trondheim, Norway. sushil.tripathi@ntnu.no","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU) , Trondheim , Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005092543","display_name":"Alejandro Sanz de Galdeano","orcid":null},"institutions":[{"id":"https://openalex.org/I2801357902","display_name":"Instituto de Salud Carlos III","ror":"https://ror.org/00ca2c886","country_code":"ES","type":"funder","lineage":["https://openalex.org/I2801357902","https://openalex.org/I4387152914"]},{"id":"https://openalex.org/I4210088538","display_name":"Escuela Nacional de Sanidad","ror":"https://ror.org/003xj6z62","country_code":"ES","type":"education","lineage":["https://openalex.org/I2801357902","https://openalex.org/I4210088538","https://openalex.org/I4387152914"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Alejandro Sanz de Galdeano","raw_affiliation_strings":["Escuela Nacional de Sanidad, Instituto de Salud Carlos III, 28029, Madrid, Spain. asdgvarela@gmail.com","Escuela Nacional de Sanidad, Instituto de Salud Carlos III, Madrid, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Escuela Nacional de Sanidad, Instituto de Salud Carlos III, 28029, Madrid, Spain. asdgvarela@gmail.com","institution_ids":["https://openalex.org/I4210088538"]},{"raw_affiliation_string":"Escuela Nacional de Sanidad, Instituto de Salud Carlos III, Madrid, Spain","institution_ids":["https://openalex.org/I2801357902","https://openalex.org/I4210088538"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083985501","display_name":"Ward Blond\u00e9","orcid":"https://orcid.org/0000-0001-7624-4069"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Ward Blond\u00e9","raw_affiliation_strings":["Department of Biology, Norwegian University of Science and Technology (NTNU), N-7491, Trondheim, Norway. w.blonde@vumc.nl","Department of Biology, Norwegian University of science and Technology (NTNU), Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Norwegian University of Science and Technology (NTNU), N-7491, Trondheim, Norway. w.blonde@vumc.nl","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Department of Biology, Norwegian University of science and Technology (NTNU), Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084054353","display_name":"Astrid L\u00e6greid","orcid":"https://orcid.org/0000-0002-3941-4257"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Astrid L\u00e6greid","raw_affiliation_strings":["Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), N-7489, Trondheim, Norway. astrid.lagreid@ntnu.no","Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU) , Trondheim , Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU), N-7489, Trondheim, Norway. astrid.lagreid@ntnu.no","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Department of Cancer Research and Molecular Medicine, Norwegian University of Science and Technology (NTNU) , Trondheim , Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080056836","display_name":"Vladimir Mironov","orcid":"https://orcid.org/0000-0002-9454-5823"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Vladimir Mironov","raw_affiliation_strings":["Department of Biology, Norwegian University of Science and Technology (NTNU), N-7491, Trondheim, Norway. vladimir.mironov@ntnu.no","Department of Biology, Norwegian University of science and Technology (NTNU), Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Norwegian University of Science and Technology (NTNU), N-7491, Trondheim, Norway. vladimir.mironov@ntnu.no","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Department of Biology, Norwegian University of science and Technology (NTNU), Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077915624","display_name":"Martin Kuiper","orcid":"https://orcid.org/0000-0002-1171-9876"},"institutions":[{"id":"https://openalex.org/I204778367","display_name":"Norwegian University of Science and Technology","ror":"https://ror.org/05xg72x27","country_code":"NO","type":"education","lineage":["https://openalex.org/I204778367"]}],"countries":["NO"],"is_corresponding":true,"raw_author_name":"Martin Kuiper","raw_affiliation_strings":["Department of Biology, Norwegian University of Science and Technology (NTNU), N-7491, Trondheim, Norway. martin.kuiper@ntnu.no","Department of Biology, Norwegian University of science and Technology (NTNU), Trondheim, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Norwegian University of Science and Technology (NTNU), N-7491, Trondheim, Norway. martin.kuiper@ntnu.no","institution_ids":["https://openalex.org/I204778367"]},{"raw_affiliation_string":"Department of Biology, Norwegian University of science and Technology (NTNU), Trondheim, Norway","institution_ids":["https://openalex.org/I204778367"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5077915624"],"corresponding_institution_ids":["https://openalex.org/I204778367"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":1574,"currency":"EUR","value_usd":1697},"fwci":0.3898,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.59919136,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"15","issue":"1","first_page":"386","last_page":"386"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.5633000135421753,"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":0.5633000135421753,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.38690000772476196,"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":0.009499999694526196,"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/dna-microarray","display_name":"DNA microarray","score":0.6559853553771973},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.6298388242721558},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.593835175037384},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.5900290012359619},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5706519484519958},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5059544444084167},{"id":"https://openalex.org/keywords/base","display_name":"Base (topology)","score":0.4999258518218994},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.4850010573863983},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4656316637992859},{"id":"https://openalex.org/keywords/gene-nomenclature","display_name":"Gene nomenclature","score":0.4463127851486206},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"Gene expression profiling","score":0.43942877650260925},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.10498109459877014}],"concepts":[{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.6559853553771973},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.6298388242721558},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.593835175037384},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.5900290012359619},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5706519484519958},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5059544444084167},{"id":"https://openalex.org/C42058472","wikidata":"https://www.wikidata.org/wiki/Q810214","display_name":"Base (topology)","level":2,"score":0.4999258518218994},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.4850010573863983},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4656316637992859},{"id":"https://openalex.org/C62177273","wikidata":"https://www.wikidata.org/wiki/Q5531556","display_name":"Gene nomenclature","level":4,"score":0.4463127851486206},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.43942877650260925},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.10498109459877014},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C58642233","wikidata":"https://www.wikidata.org/wiki/Q8269924","display_name":"Taxonomy (biology)","level":2,"score":0.0},{"id":"https://openalex.org/C514705636","wikidata":"https://www.wikidata.org/wiki/Q863247","display_name":"Nomenclature","level":3,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"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":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":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},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-014-0386-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-014-0386-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-014-0386-y","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:25490885","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25490885","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:brage.bibsys.no:11250/2386483","is_oa":true,"landing_page_url":"http://hdl.handle.net/11250/2386483","pdf_url":null,"source":{"id":"https://openalex.org/S4306400255","display_name":"BIBSYS Brage (BIBSYS (Norway))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I173212132","host_organization_name":"Vilnius University","host_organization_lineage":["https://openalex.org/I173212132"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"15","raw_type":"Journal article"},{"id":"pmh:oai:europepmc.org:3243951","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4279962","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:dnet:repisalud___::00f46948039c10b43335b6bbf7536e28","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.12105/9489","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-nc-sa","license_id":"https://openalex.org/licenses/cc-by-nc-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1186/s12859-014-0386-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-014-0386-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-014-0386-y","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/F4320310758","display_name":"Kreftforeningen","ror":"https://ror.org/01925vb10"},{"id":"https://openalex.org/F4320311040","display_name":"Norges Teknisk-Naturvitenskapelige Universitet","ror":"https://ror.org/05xg72x27"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2018873261.pdf","grobid_xml":"https://content.openalex.org/works/W2018873261.grobid-xml"},"referenced_works_count":66,"referenced_works":["https://openalex.org/W171205505","https://openalex.org/W221213016","https://openalex.org/W1529177558","https://openalex.org/W1591429950","https://openalex.org/W1651004564","https://openalex.org/W1968910000","https://openalex.org/W1969709265","https://openalex.org/W1971676632","https://openalex.org/W1972793074","https://openalex.org/W1973415432","https://openalex.org/W1984264347","https://openalex.org/W1988048122","https://openalex.org/W1993977866","https://openalex.org/W1999615477","https://openalex.org/W2008856488","https://openalex.org/W2023335249","https://openalex.org/W2028382049","https://openalex.org/W2028745546","https://openalex.org/W2030371558","https://openalex.org/W2033377040","https://openalex.org/W2046741237","https://openalex.org/W2050695190","https://openalex.org/W2054835199","https://openalex.org/W2066635822","https://openalex.org/W2068577315","https://openalex.org/W2070412833","https://openalex.org/W2078022480","https://openalex.org/W2094953050","https://openalex.org/W2095535075","https://openalex.org/W2095869976","https://openalex.org/W2096525273","https://openalex.org/W2096939566","https://openalex.org/W2097698606","https://openalex.org/W2103017472","https://openalex.org/W2103260426","https://openalex.org/W2109750550","https://openalex.org/W2110301462","https://openalex.org/W2111756220","https://openalex.org/W2112862294","https://openalex.org/W2113142309","https://openalex.org/W2120627294","https://openalex.org/W2129994470","https://openalex.org/W2130253098","https://openalex.org/W2131395507","https://openalex.org/W2136535932","https://openalex.org/W2138669911","https://openalex.org/W2141781797","https://openalex.org/W2142067151","https://openalex.org/W2144631782","https://openalex.org/W2146827200","https://openalex.org/W2147372875","https://openalex.org/W2149378423","https://openalex.org/W2153113090","https://openalex.org/W2156786194","https://openalex.org/W2158439765","https://openalex.org/W2159482845","https://openalex.org/W2163876340","https://openalex.org/W2165428180","https://openalex.org/W2165685472","https://openalex.org/W2167241965","https://openalex.org/W2169049983","https://openalex.org/W2274127508","https://openalex.org/W3100767471","https://openalex.org/W4210962885","https://openalex.org/W4245803912","https://openalex.org/W4294216483"],"related_works":["https://openalex.org/W2069695727","https://openalex.org/W1996185163","https://openalex.org/W2084813257","https://openalex.org/W2045929470","https://openalex.org/W2081127504","https://openalex.org/W2122223946","https://openalex.org/W4233500668","https://openalex.org/W1974145978","https://openalex.org/W1977867163","https://openalex.org/W2393426762"],"abstract_inverted_index":{"BACKGROUND:":[0],"Network-based":[1],"approaches":[2],"for":[3,36,76,93,138,165,209,220,274],"the":[4,22,37,65,77,104,126,139,166,218],"analysis":[5],"of":[6,26,39,48,54,59,64,79,128,141,177,203],"large-scale":[7],"genomics":[8],"data":[9,28,189],"have":[10,102],"become":[11],"well":[12],"established.":[13],"Biological":[14],"networks":[15,41,96],"provide":[16,217],"a":[17,46,52,89,110,155,175,201,276],"knowledge":[18,49,81,119,192,235],"scaffold":[19],"against":[20],"which":[21],"patterns":[23],"and":[24,97,181,190,222,262],"dynamics":[25],"'omics'":[27],"can":[29,135,196,253],"be":[30,136,197,254,272],"interpreted.":[31],"The":[32,56,70,228],"background":[33],"information":[34,61,226,264],"required":[35],"construction":[38],"such":[40,232],"is":[42,62],"often":[43],"dispersed":[44],"across":[45],"multitude":[47],"bases":[50,82],"in":[51,68,158,256],"variety":[53],"formats.":[55],"seamless":[57],"integration":[58],"this":[60,133],"one":[63],"main":[66],"challenges":[67],"bioinformatics.":[69],"Semantic":[71,214],"Web":[72],"offers":[73,230],"powerful":[74,91],"technologies":[75,216],"assembly":[78],"integrated":[80,118,234],"that":[83,116,151,205,270],"are":[84],"computationally":[85],"comprehensible,":[86],"thereby":[87],"providing":[88],"potentially":[90],"resource":[92,115,134],"constructing":[94],"biological":[95,156,242],"network-based":[98],"analysis.":[99],"RESULTS:":[100],"We":[101,146,172],"developed":[103],"Gene":[105],"eXpression":[106],"Knowledge":[107],"Base":[108],"(GeXKB),":[109],"semantic":[111],"web":[112,215],"technology":[113],"based":[114],"contains":[117],"about":[120],"gene":[121,187,246,259,277],"expression":[122,188,260],"regulation.":[123],"To":[124],"affirm":[125],"utility":[127],"GeXKB":[129,229,252],"we":[130],"demonstrate":[131],"how":[132,174,251],"exploited":[137],"identification":[140],"candidate":[142,162,194],"regulatory":[143,210,278],"network":[144,170,211],"proteins.":[145],"present":[147],"four":[148],"use":[149],"cases":[150],"were":[152],"designed":[153],"from":[154,186],"perspective":[157],"order":[159],"to":[160,199,239,245,265],"find":[161],"members":[163],"relevant":[164],"gastrin":[167],"hormone":[168],"signaling":[169],"model.":[171],"show":[173],"combination":[176,257],"specific":[178],"query":[179],"definitions":[180],"additional":[182],"selection":[183],"criteria":[184],"derived":[185],"prior":[191],"concerning":[193],"proteins":[195,204],"used":[198,255],"retrieve":[200],"set":[202],"constitute":[206],"valid":[207],"candidates":[208,269],"extensions.":[212],"CONCLUSIONS:":[213],"means":[219],"processing":[221],"integrating":[223],"various":[224],"heterogeneous":[225],"sources.":[227],"biologists":[231],"an":[233],"resource,":[236],"allowing":[237],"them":[238],"address":[240],"complex":[241],"questions":[243],"pertaining":[244],"expression.":[247],"This":[248],"work":[249],"illustrates":[250],"with":[258],"results":[261],"literature":[263],"identify":[266],"new":[267],"potential":[268],"may":[271],"considered":[273],"extending":[275],"network.":[279]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2018,"cited_by_count":3},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":1}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}
