{"id":"https://openalex.org/W2103973017","doi":"https://doi.org/10.1093/bioinformatics/bts434","title":"Context-specific transcriptional regulatory network inference from global gene expression maps using double two-way <i>t</i>-tests","display_name":"Context-specific transcriptional regulatory network inference from global gene expression maps using double two-way <i>t</i>-tests","publication_year":2012,"publication_date":"2012-09-05","ids":{"openalex":"https://openalex.org/W2103973017","doi":"https://doi.org/10.1093/bioinformatics/bts434","mag":"2103973017","pmid":"https://pubmed.ncbi.nlm.nih.gov/22962443"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts434","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts434","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/18/2325/48884952/bioinformatics_28_18_2325.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/28/18/2325/48884952/bioinformatics_28_18_2325.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021106844","display_name":"Jianlong Qi","orcid":null},"institutions":[{"id":"https://openalex.org/I133960621","display_name":"Roslin Institute","ror":"https://ror.org/01920rj20","country_code":"GB","type":"facility","lineage":["https://openalex.org/I133960621","https://openalex.org/I2799693246","https://openalex.org/I4210087105","https://openalex.org/I98677209"]},{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]},{"id":"https://openalex.org/I161046081","display_name":"University of Freiburg","ror":"https://ror.org/0245cg223","country_code":"DE","type":"education","lineage":["https://openalex.org/I161046081"]}],"countries":["DE","GB"],"is_corresponding":true,"raw_author_name":"Jianlong Qi","raw_affiliation_strings":["1 School of Life Sciences\u2014LifeNet, Freiburg Institute for Advanced Studies (FRIAS), University of Freiburg, Albertstrasse 19, D-79104 Freiburg im Breisgau, Germany and 2Division of Genetics and Genomics, The Roslin Institute, University of Edinburgh, Easter Bush, Midlothian EH25 9RG, UK"],"affiliations":[{"raw_affiliation_string":"1 School of Life Sciences\u2014LifeNet, Freiburg Institute for Advanced Studies (FRIAS), University of Freiburg, Albertstrasse 19, D-79104 Freiburg im Breisgau, Germany and 2Division of Genetics and Genomics, The Roslin Institute, University of Edinburgh, Easter Bush, Midlothian EH25 9RG, UK","institution_ids":["https://openalex.org/I161046081","https://openalex.org/I133960621","https://openalex.org/I98677209"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5061259711","display_name":"Tom Michoel","orcid":"https://orcid.org/0000-0003-4749-4725"},"institutions":[{"id":"https://openalex.org/I161046081","display_name":"University of Freiburg","ror":"https://ror.org/0245cg223","country_code":"DE","type":"education","lineage":["https://openalex.org/I161046081"]},{"id":"https://openalex.org/I133960621","display_name":"Roslin Institute","ror":"https://ror.org/01920rj20","country_code":"GB","type":"facility","lineage":["https://openalex.org/I133960621","https://openalex.org/I2799693246","https://openalex.org/I4210087105","https://openalex.org/I98677209"]},{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["DE","GB"],"is_corresponding":false,"raw_author_name":"Tom Michoel","raw_affiliation_strings":["1 School of Life Sciences\u2014LifeNet, Freiburg Institute for Advanced Studies (FRIAS), University of Freiburg, Albertstrasse 19, D-79104 Freiburg im Breisgau, Germany and 2Division of Genetics and Genomics, The Roslin Institute, University of Edinburgh, Easter Bush, Midlothian EH25 9RG, UK"],"affiliations":[{"raw_affiliation_string":"1 School of Life Sciences\u2014LifeNet, Freiburg Institute for Advanced Studies (FRIAS), University of Freiburg, Albertstrasse 19, D-79104 Freiburg im Breisgau, Germany and 2Division of Genetics and Genomics, The Roslin Institute, University of Edinburgh, Easter Bush, Midlothian EH25 9RG, UK","institution_ids":["https://openalex.org/I161046081","https://openalex.org/I133960621","https://openalex.org/I98677209"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5021106844"],"corresponding_institution_ids":["https://openalex.org/I133960621","https://openalex.org/I161046081","https://openalex.org/I98677209"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.788,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.71159347,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"28","issue":"18","first_page":"2325","last_page":"2332"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9991000294685364,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9991000294685364,"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":0.9983999729156494,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.998199999332428,"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/inference","display_name":"Inference","score":0.7075909972190857},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6599440574645996},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.6474848389625549},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.5715402960777283},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5328745245933533},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5053468346595764},{"id":"https://openalex.org/keywords/expression","display_name":"Expression (computer science)","score":0.48250246047973633},{"id":"https://openalex.org/keywords/statistical-inference","display_name":"Statistical inference","score":0.47951796650886536},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.45830726623535156},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4519318640232086},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3243783712387085},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.30000507831573486},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2648894786834717},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.14448636770248413},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.13831588625907898},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.10389494895935059}],"concepts":[{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.7075909972190857},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6599440574645996},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.6474848389625549},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.5715402960777283},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5328745245933533},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5053468346595764},{"id":"https://openalex.org/C90559484","wikidata":"https://www.wikidata.org/wiki/Q778379","display_name":"Expression (computer science)","level":2,"score":0.48250246047973633},{"id":"https://openalex.org/C134261354","wikidata":"https://www.wikidata.org/wiki/Q938438","display_name":"Statistical inference","level":2,"score":0.47951796650886536},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.45830726623535156},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4519318640232086},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3243783712387085},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.30000507831573486},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2648894786834717},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.14448636770248413},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.13831588625907898},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.10389494895935059},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"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":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","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":"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":2,"locations":[{"id":"doi:10.1093/bioinformatics/bts434","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts434","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/18/2325/48884952/bioinformatics_28_18_2325.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:22962443","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22962443","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bts434","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts434","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/18/2325/48884952/bioinformatics_28_18_2325.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17","score":0.44999998807907104}],"awards":[{"id":"https://openalex.org/G5410913946","display_name":null,"funder_award_id":"BBS/E/D/20211553","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G8270351391","display_name":null,"funder_award_id":"BBS/E/D/20211551","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2103973017.pdf","grobid_xml":"https://content.openalex.org/works/W2103973017.grobid-xml"},"referenced_works_count":35,"referenced_works":["https://openalex.org/W1479933963","https://openalex.org/W1514399329","https://openalex.org/W1546952499","https://openalex.org/W1835886210","https://openalex.org/W1970357458","https://openalex.org/W1970679073","https://openalex.org/W2005322337","https://openalex.org/W2008395997","https://openalex.org/W2017287612","https://openalex.org/W2032180308","https://openalex.org/W2044525257","https://openalex.org/W2061163312","https://openalex.org/W2061874168","https://openalex.org/W2069513236","https://openalex.org/W2070672503","https://openalex.org/W2076513103","https://openalex.org/W2078497867","https://openalex.org/W2080498142","https://openalex.org/W2081098333","https://openalex.org/W2098754388","https://openalex.org/W2115108153","https://openalex.org/W2125631472","https://openalex.org/W2127057035","https://openalex.org/W2129265801","https://openalex.org/W2136518208","https://openalex.org/W2137683543","https://openalex.org/W2143076232","https://openalex.org/W2161922735","https://openalex.org/W2161986541","https://openalex.org/W2163296115","https://openalex.org/W2164468497","https://openalex.org/W2167190345","https://openalex.org/W2324917470","https://openalex.org/W3099289621","https://openalex.org/W6684554214"],"related_works":["https://openalex.org/W2963058055","https://openalex.org/W2511279186","https://openalex.org/W2981347089","https://openalex.org/W2911288319","https://openalex.org/W3001657888","https://openalex.org/W3098026267","https://openalex.org/W4297733971","https://openalex.org/W2130672128","https://openalex.org/W2786015885","https://openalex.org/W2974888070"],"abstract_inverted_index":{"tom.michoel@roslin.ed.ac.uk.":[0]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":2},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2016-06-24T00:00:00"}
