{"id":"https://openalex.org/W2138835117","doi":"https://doi.org/10.1186/1471-2105-14-178","title":"Exploring the transcription factor activity in high-throughput gene expression data using RLQ analysis","display_name":"Exploring the transcription factor activity in high-throughput gene expression data using RLQ analysis","publication_year":2013,"publication_date":"2013-06-06","ids":{"openalex":"https://openalex.org/W2138835117","doi":"https://doi.org/10.1186/1471-2105-14-178","mag":"2138835117","pmid":"https://pubmed.ncbi.nlm.nih.gov/23742070"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-14-178","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-178","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-178","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/10.1186/1471-2105-14-178","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5013406154","display_name":"Florent Baty","orcid":"https://orcid.org/0000-0002-1425-0428"},"institutions":[{"id":"https://openalex.org/I202963720","display_name":"University of St.Gallen","ror":"https://ror.org/0561a3s31","country_code":"CH","type":"education","lineage":["https://openalex.org/I202963720"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Florent Baty","raw_affiliation_strings":["Division of Pulmonary Medicine, Cantonal Hospital St, Gallen, Rorschacherstrasse 95, CH-9007 St, Gallen, Switzerland. florent.baty@kssg.ch","Division of Pulmonary Medicine, Cantonal Hospital St, Gallen, Rorschacherstrasse 95, CH-9007 St, Gallen, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Pulmonary Medicine, Cantonal Hospital St, Gallen, Rorschacherstrasse 95, CH-9007 St, Gallen, Switzerland. florent.baty@kssg.ch","institution_ids":["https://openalex.org/I202963720"]},{"raw_affiliation_string":"Division of Pulmonary Medicine, Cantonal Hospital St, Gallen, Rorschacherstrasse 95, CH-9007 St, Gallen, Switzerland","institution_ids":["https://openalex.org/I202963720"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057112662","display_name":"Jochen J. R\u00fcdiger","orcid":null},"institutions":[{"id":"https://openalex.org/I202963720","display_name":"University of St.Gallen","ror":"https://ror.org/0561a3s31","country_code":"CH","type":"education","lineage":["https://openalex.org/I202963720"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Jochen R\u00fcdiger","raw_affiliation_strings":["Division of Pulmonary Medicine, Cantonal Hospital St. Gallen, Rorschacherstrasse 95, CH-9007, St. Gallen, Switzerland","Division of Pulmonary Medicine, Cantonal Hospital St. Gallen, St. Gallen, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Pulmonary Medicine, Cantonal Hospital St. Gallen, Rorschacherstrasse 95, CH-9007, St. Gallen, Switzerland","institution_ids":["https://openalex.org/I202963720"]},{"raw_affiliation_string":"Division of Pulmonary Medicine, Cantonal Hospital St. Gallen, St. Gallen, Switzerland","institution_ids":["https://openalex.org/I202963720"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034441927","display_name":"Nicola Miglino","orcid":null},"institutions":[{"id":"https://openalex.org/I2802542264","display_name":"University Hospital of Basel","ror":"https://ror.org/04k51q396","country_code":"CH","type":"healthcare","lineage":["https://openalex.org/I2802542264"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Nicola Miglino","raw_affiliation_strings":["Department of Biomedicine, University Hospital Basel, Petersgraben 4, CH-4001, Basel, Switzerland","Department of Biomedicine; University Hospital Basel; Basel, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedicine, University Hospital Basel, Petersgraben 4, CH-4001, Basel, Switzerland","institution_ids":["https://openalex.org/I2802542264"]},{"raw_affiliation_string":"Department of Biomedicine; University Hospital Basel; Basel, Switzerland","institution_ids":["https://openalex.org/I2802542264"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110565529","display_name":"Lukas Kern","orcid":null},"institutions":[{"id":"https://openalex.org/I4210096011","display_name":"Zug Cantonal Hospital","ror":"https://ror.org/00rm7zs53","country_code":"CH","type":"healthcare","lineage":["https://openalex.org/I4210096011"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Lukas Kern","raw_affiliation_strings":["Pulmonary Medicine, Cantonal Hospital Zug, Landhausstrasse 11, CH-6340, Baar, Switzerland","Pulmonary Medicine, Cantonal Hospital Zug, Baar, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pulmonary Medicine, Cantonal Hospital Zug, Landhausstrasse 11, CH-6340, Baar, Switzerland","institution_ids":["https://openalex.org/I4210096011"]},{"raw_affiliation_string":"Pulmonary Medicine, Cantonal Hospital Zug, Baar, Switzerland","institution_ids":["https://openalex.org/I4210096011"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109858232","display_name":"Peter Borger","orcid":null},"institutions":[{"id":"https://openalex.org/I2802542264","display_name":"University Hospital of Basel","ror":"https://ror.org/04k51q396","country_code":"CH","type":"healthcare","lineage":["https://openalex.org/I2802542264"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Peter Borger","raw_affiliation_strings":["Department of Biomedicine, University Hospital Basel, Petersgraben 4, CH-4001, Basel, Switzerland","Department of Biomedicine; University Hospital Basel; Basel, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedicine, University Hospital Basel, Petersgraben 4, CH-4001, Basel, Switzerland","institution_ids":["https://openalex.org/I2802542264"]},{"raw_affiliation_string":"Department of Biomedicine; University Hospital Basel; Basel, Switzerland","institution_ids":["https://openalex.org/I2802542264"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048356664","display_name":"Martin Brutsche","orcid":"https://orcid.org/0000-0002-1612-3609"},"institutions":[{"id":"https://openalex.org/I202963720","display_name":"University of St.Gallen","ror":"https://ror.org/0561a3s31","country_code":"CH","type":"education","lineage":["https://openalex.org/I202963720"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Martin Brutsche","raw_affiliation_strings":["Division of Pulmonary Medicine, Cantonal Hospital St. Gallen, Rorschacherstrasse 95, CH-9007, St. Gallen, Switzerland","Division of Pulmonary Medicine, Cantonal Hospital St. Gallen, St. Gallen, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Pulmonary Medicine, Cantonal Hospital St. Gallen, Rorschacherstrasse 95, CH-9007, St. Gallen, Switzerland","institution_ids":["https://openalex.org/I202963720"]},{"raw_affiliation_string":"Division of Pulmonary Medicine, Cantonal Hospital St. Gallen, St. Gallen, Switzerland","institution_ids":["https://openalex.org/I202963720"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5013406154"],"corresponding_institution_ids":["https://openalex.org/I202963720"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.4488,"has_fulltext":true,"cited_by_count":11,"citation_normalized_percentile":{"value":0.66646818,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"14","issue":"1","first_page":"178","last_page":"178"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9995999932289124,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9995999932289124,"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/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.9890000224113464,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9847000241279602,"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":0.6842876672744751},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6634032130241394},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.6205796003341675},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6050950884819031},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.5774511694908142},{"id":"https://openalex.org/keywords/microarray-analysis-techniques","display_name":"Microarray analysis techniques","score":0.5336860418319702},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.4657628834247589},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.4248894155025482},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4217197299003601},{"id":"https://openalex.org/keywords/microarray","display_name":"Microarray","score":0.4154786765575409},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"Gene expression profiling","score":0.41377946734428406},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3592403531074524},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.32559844851493835}],"concepts":[{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.6842876672744751},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6634032130241394},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.6205796003341675},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6050950884819031},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.5774511694908142},{"id":"https://openalex.org/C8415881","wikidata":"https://www.wikidata.org/wiki/Q6839217","display_name":"Microarray analysis techniques","level":4,"score":0.5336860418319702},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.4657628834247589},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.4248894155025482},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4217197299003601},{"id":"https://openalex.org/C186836561","wikidata":"https://www.wikidata.org/wiki/Q1931516","display_name":"Microarray","level":4,"score":0.4154786765575409},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.41377946734428406},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3592403531074524},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.32559844851493835}],"mesh":[{"descriptor_ui":"D000068656","descriptor_name":"Mometasone Furoate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000068656","descriptor_name":"Mometasone Furoate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000068656","descriptor_name":"Mometasone Furoate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005347","descriptor_name":"Fibroblasts","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D005347","descriptor_name":"Fibroblasts","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D005347","descriptor_name":"Fibroblasts","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D005347","descriptor_name":"Fibroblasts","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D005347","descriptor_name":"Fibroblasts","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D005347","descriptor_name":"Fibroblasts","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D005347","descriptor_name":"Fibroblasts","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005347","descriptor_name":"Fibroblasts","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005347","descriptor_name":"Fibroblasts","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D011244","descriptor_name":"Pregnadienediols","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D011244","descriptor_name":"Pregnadienediols","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D011244","descriptor_name":"Pregnadienediols","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015999","descriptor_name":"Multivariate Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015999","descriptor_name":"Multivariate Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015999","descriptor_name":"Multivariate Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","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":"D049109","descriptor_name":"Cell Proliferation","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D049109","descriptor_name":"Cell Proliferation","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D049109","descriptor_name":"Cell Proliferation","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1186/1471-2105-14-178","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-178","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-178","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:23742070","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23742070","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:europepmc.org:2685547","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3686578","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"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-14-178","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-14-178","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-14-178","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":[{"id":"https://openalex.org/G2561756797","display_name":"The search for the regulated retro-transposon transcriptome in complex diseases: Asthma as a model","funder_award_id":"133109","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G3807112278","display_name":null,"funder_award_id":"310030-133109","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G8105150848","display_name":null,"funder_award_id":"310030","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8690818240","display_name":null,"funder_award_id":"310030","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2138835117.pdf","grobid_xml":"https://content.openalex.org/works/W2138835117.grobid-xml"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W1542249880","https://openalex.org/W1972221753","https://openalex.org/W1974948854","https://openalex.org/W1986629516","https://openalex.org/W1988393300","https://openalex.org/W2006463899","https://openalex.org/W2026731344","https://openalex.org/W2030033188","https://openalex.org/W2036965437","https://openalex.org/W2040468230","https://openalex.org/W2053125671","https://openalex.org/W2056445521","https://openalex.org/W2071042066","https://openalex.org/W2074489367","https://openalex.org/W2095718954","https://openalex.org/W2096164879","https://openalex.org/W2097553067","https://openalex.org/W2099607215","https://openalex.org/W2103017472","https://openalex.org/W2103021674","https://openalex.org/W2103327413","https://openalex.org/W2106797333","https://openalex.org/W2112364930","https://openalex.org/W2117182699","https://openalex.org/W2122512858","https://openalex.org/W2122854254","https://openalex.org/W2131666115","https://openalex.org/W2132251976","https://openalex.org/W2132688955","https://openalex.org/W2154388264","https://openalex.org/W2157487693","https://openalex.org/W2160697532","https://openalex.org/W2165384723","https://openalex.org/W2169753137","https://openalex.org/W2170219043","https://openalex.org/W2170989872","https://openalex.org/W2171437346","https://openalex.org/W2996558561"],"related_works":["https://openalex.org/W1996185163","https://openalex.org/W170658859","https://openalex.org/W2081127504","https://openalex.org/W1483316219","https://openalex.org/W4310366902","https://openalex.org/W2183420549","https://openalex.org/W2490137852","https://openalex.org/W2039699813","https://openalex.org/W2081507994","https://openalex.org/W1972696957"],"abstract_inverted_index":{"BACKGROUND:":[0],"Interpretation":[1],"of":[2,10,26,38,47,49,61,73,129,134,152,159,168,181],"gene":[3,21,62,81,189,201],"expression":[4,190],"microarray":[5,99],"data":[6,100],"in":[7,30,57,79,155,187],"the":[8,24,59,71,80,90,126,132,156,160,195],"light":[9],"external":[11,153],"information":[12,28,43,103,154],"on":[13,106,131],"both":[14,107],"columns":[15],"and":[16,20,109,146,172,183,200],"rows":[17],"(experimental":[18],"variables":[19,199],"annotations)":[22],"facilitates":[23],"extraction":[25],"pertinent":[27],"hidden":[29],"these":[31],"complex":[32],"data.":[33],"Biologists":[34],"classically":[35],"interpret":[36],"genes":[37,48,108],"interest":[39],"after":[40],"retrieving":[41],"functional":[42],"from":[44],"a":[45,188],"subset":[46],"interest.":[50],"Transcription":[51],"factors":[52,76],"play":[53],"an":[54,112,178],"important":[55],"role":[56],"orchestrating":[58],"regulation":[60],"expression.":[63],"Their":[64],"activity":[65,123],"can":[66],"be":[67],"deduced":[68],"by":[69,166,192],"examining":[70],"presence":[72],"putative":[74],"transcription":[75,121,143],"binding":[77],"sites":[78],"promoter":[82],"regions.":[83],"RESULTS:":[84],"In":[85],"this":[86],"paper":[87],"we":[88,115],"present":[89,186],"multivariate":[91],"statistical":[92,170],"method":[93],"RLQ":[94,117,139,176],"which":[95],"aims":[96],"to":[97,119],"analyze":[98,120],"where":[101],"additional":[102],"is":[104],"available":[105],"samples.":[110],"As":[111],"illustrative":[113],"example,":[114],"applied":[116],"methodology":[118],"factor":[122,144],"associated":[124],"with":[125],"time-course":[127],"effect":[128],"steroids":[130],"growth":[133],"primary":[135],"human":[136],"lung":[137],"fibroblasts.":[138],"could":[140,147],"successfully":[141],"predict":[142],"activity,":[145],"integrate":[148],"various":[149],"other":[150],"sources":[151],"main":[157],"frame":[158],"analysis.":[161],"The":[162],"approach":[163],"was":[164],"validated":[165],"means":[167],"alternative":[169],"methods":[171],"biological":[173],"validation.":[174],"CONCLUSIONS:":[175],"provides":[177],"efficient":[179],"way":[180],"extracting":[182],"visualizing":[184],"structures":[185],"dataset":[191],"directly":[193],"modeling":[194],"link":[196],"between":[197],"experimental":[198],"annotations.":[202]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}
