{"id":"https://openalex.org/W1996849343","doi":"https://doi.org/10.1109/gensips.2012.6507755","title":"Inferring weighted and directed gene interaction networks from gene expression data using the phi-mixing coefficient","display_name":"Inferring weighted and directed gene interaction networks from gene expression data using the phi-mixing coefficient","publication_year":2012,"publication_date":"2012-12-01","ids":{"openalex":"https://openalex.org/W1996849343","doi":"https://doi.org/10.1109/gensips.2012.6507755","mag":"1996849343"},"language":"en","primary_location":{"id":"doi:10.1109/gensips.2012.6507755","is_oa":false,"landing_page_url":"https://doi.org/10.1109/gensips.2012.6507755","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings 2012 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5004469409","display_name":"Nitin K. Singh","orcid":"https://orcid.org/0000-0001-5344-1190"},"institutions":[{"id":"https://openalex.org/I162577319","display_name":"The University of Texas at Dallas","ror":"https://ror.org/049emcs32","country_code":"US","type":"education","lineage":["https://openalex.org/I162577319"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Nitin Singh","raw_affiliation_strings":["Department of Bioengineering, University of Texas at Dallas, Dallas"],"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of Texas at Dallas, Dallas","institution_ids":["https://openalex.org/I162577319"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030913634","display_name":"Mehmet Eren Ahsen","orcid":"https://orcid.org/0000-0002-4907-0427"},"institutions":[{"id":"https://openalex.org/I162577319","display_name":"The University of Texas at Dallas","ror":"https://ror.org/049emcs32","country_code":"US","type":"education","lineage":["https://openalex.org/I162577319"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mehmet Eren Ahsen","raw_affiliation_strings":["Department of Bioengineering, University of Texas at Dallas, Dallas"],"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of Texas at Dallas, Dallas","institution_ids":["https://openalex.org/I162577319"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016013068","display_name":"Shiva Mankala","orcid":null},"institutions":[{"id":"https://openalex.org/I162577319","display_name":"The University of Texas at Dallas","ror":"https://ror.org/049emcs32","country_code":"US","type":"education","lineage":["https://openalex.org/I162577319"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shiva Mankala","raw_affiliation_strings":["Department of Bioengineering, University of Texas at Dallas, Dallas"],"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of Texas at Dallas, Dallas","institution_ids":["https://openalex.org/I162577319"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089027398","display_name":"M. Vidyasagar","orcid":"https://orcid.org/0000-0003-1057-1942"},"institutions":[{"id":"https://openalex.org/I162577319","display_name":"The University of Texas at Dallas","ror":"https://ror.org/049emcs32","country_code":"US","type":"education","lineage":["https://openalex.org/I162577319"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"M. Vidyasagar","raw_affiliation_strings":["Department of Bioengineering, University of Texas at Dallas, Dallas"],"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of Texas at Dallas, Dallas","institution_ids":["https://openalex.org/I162577319"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088421747","display_name":"Michael A. White","orcid":"https://orcid.org/0000-0001-6772-1388"},"institutions":[{"id":"https://openalex.org/I4388891891","display_name":"Southwestern Medical Center","ror":"https://ror.org/05d80e146","country_code":null,"type":"healthcare","lineage":["https://openalex.org/I4388891891"]},{"id":"https://openalex.org/I867280407","display_name":"The University of Texas Southwestern Medical Center","ror":"https://ror.org/05byvp690","country_code":"US","type":"education","lineage":["https://openalex.org/I867280407"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael White","raw_affiliation_strings":["Cell Biology Department, UT Southwestern Medical Center, Dallas"],"affiliations":[{"raw_affiliation_string":"Cell Biology Department, UT Southwestern Medical Center, Dallas","institution_ids":["https://openalex.org/I867280407","https://openalex.org/I4388891891"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5004469409"],"corresponding_institution_ids":["https://openalex.org/I162577319"],"apc_list":null,"apc_paid":null,"fwci":0.6567,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.66968729,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":null,"issue":null,"first_page":"168","last_page":"171"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9997000098228455,"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":0.9997000098228455,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.996999979019165,"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":0.9940999746322632,"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/sox10","display_name":"SOX10","score":0.6644694805145264},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5655916333198547},{"id":"https://openalex.org/keywords/lung-cancer","display_name":"Lung cancer","score":0.5576608777046204},{"id":"https://openalex.org/keywords/mixing","display_name":"Mixing (physics)","score":0.5280702114105225},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.5080814361572266},{"id":"https://openalex.org/keywords/melanoma","display_name":"Melanoma","score":0.5039557814598083},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4873676896095276},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.45442110300064087},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3719019889831543},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3596230745315552},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3287968933582306},{"id":"https://openalex.org/keywords/cancer-research","display_name":"Cancer research","score":0.26142504811286926},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.24759584665298462},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.14608356356620789},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.1303015947341919},{"id":"https://openalex.org/keywords/oncology","display_name":"Oncology","score":0.12099671363830566}],"concepts":[{"id":"https://openalex.org/C2777302934","wikidata":"https://www.wikidata.org/wiki/Q18031655","display_name":"SOX10","level":4,"score":0.6644694805145264},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5655916333198547},{"id":"https://openalex.org/C2776256026","wikidata":"https://www.wikidata.org/wiki/Q47912","display_name":"Lung cancer","level":2,"score":0.5576608777046204},{"id":"https://openalex.org/C138777275","wikidata":"https://www.wikidata.org/wiki/Q6884054","display_name":"Mixing (physics)","level":2,"score":0.5280702114105225},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.5080814361572266},{"id":"https://openalex.org/C2777658100","wikidata":"https://www.wikidata.org/wiki/Q180614","display_name":"Melanoma","level":2,"score":0.5039557814598083},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4873676896095276},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.45442110300064087},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3719019889831543},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3596230745315552},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3287968933582306},{"id":"https://openalex.org/C502942594","wikidata":"https://www.wikidata.org/wiki/Q3421914","display_name":"Cancer research","level":1,"score":0.26142504811286926},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.24759584665298462},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.14608356356620789},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.1303015947341919},{"id":"https://openalex.org/C143998085","wikidata":"https://www.wikidata.org/wiki/Q162555","display_name":"Oncology","level":1,"score":0.12099671363830566},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/gensips.2012.6507755","is_oa":false,"landing_page_url":"https://doi.org/10.1109/gensips.2012.6507755","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings 2012 IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.7699999809265137,"id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320310169","display_name":"University of Texas Southwestern Medical Center","ror":"https://ror.org/05byvp690"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":11,"referenced_works":["https://openalex.org/W1511986666","https://openalex.org/W1965032353","https://openalex.org/W1980362252","https://openalex.org/W2054416990","https://openalex.org/W2076372398","https://openalex.org/W2078149659","https://openalex.org/W2081172240","https://openalex.org/W2086426115","https://openalex.org/W2125631472","https://openalex.org/W2154454113","https://openalex.org/W2611370172"],"related_works":["https://openalex.org/W2161791526","https://openalex.org/W2035059684","https://openalex.org/W2056420557","https://openalex.org/W2156072244","https://openalex.org/W2040316127","https://openalex.org/W2070826332","https://openalex.org/W2026321840","https://openalex.org/W2378769890","https://openalex.org/W1958675029","https://openalex.org/W4379208626"],"abstract_inverted_index":{"In":[0],"this":[1],"paper,":[2],"we":[3],"present":[4],"a":[5,50,54],"new":[6],"algorithm":[7,34],"for":[8,68],"reverse-engineering":[9],"gene":[10],"interaction":[11],"networks":[12,83],"(GINs)":[13],"from":[14],"expression":[15],"data,":[16],"using":[17,32],"the":[18,29,33,61,92],"so-called":[19],"phi-mixing":[20],"coefficient":[21],"between":[22],"two":[23],"random":[24],"variables.":[25],"Unlike":[26],"existing":[27],"methods,":[28],"GINs":[30,64],"constructed":[31,47,67],"presented":[35],"here":[36],"have":[37,65,84],"edges":[38],"that":[39,57],"are":[40,117],"both":[41],"directed":[42],"and":[43,77,81,105,110],"weighted.":[44],"The":[45,97],"GIN":[46],"is,":[48],"in":[49,72,107,115],"very":[51],"specific":[52],"sense,":[53],"minimal":[55],"network":[56],"is":[58],"compatible":[59],"with":[60,120],"data.":[62,96],"Several":[63],"been":[66,85],"various":[69],"data":[70],"sets":[71],"lung":[73,108],"cancer,":[74,109],"ovarian":[75],"cancer":[76,80],"melanoma.":[78],"Lung":[79],"melanoma":[82],"validated":[86],"by":[87],"comparing":[88],"their":[89],"predictions":[90],"against":[91],"output":[93],"of":[94,99],"ChIP-seq":[95,121],"neighbors":[98],"three":[100],"transcription":[101,112],"factors":[102],"(ASCL1,":[103],"PPARG":[104],"NKX2-1)":[106],"one":[111],"factor":[113],"SOX10":[114],"melanoma,":[116],"significantly":[118],"enriched":[119],"genes":[122],"compared":[123],"to":[124],"pure":[125],"chance.":[126]},"counts_by_year":[{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}