{"id":"https://openalex.org/W2912472598","doi":"https://doi.org/10.3390/e21020195","title":"Spatial Organization of the Gene Regulatory Program: An Information Theoretical Approach to Breast Cancer Transcriptomics","display_name":"Spatial Organization of the Gene Regulatory Program: An Information Theoretical Approach to Breast Cancer Transcriptomics","publication_year":2019,"publication_date":"2019-02-19","ids":{"openalex":"https://openalex.org/W2912472598","doi":"https://doi.org/10.3390/e21020195","mag":"2912472598","pmid":"https://pubmed.ncbi.nlm.nih.gov/33266910"},"language":"en","primary_location":{"id":"doi:10.3390/e21020195","is_oa":true,"landing_page_url":"https://doi.org/10.3390/e21020195","pdf_url":"https://www.mdpi.com/1099-4300/21/2/195/pdf?version=1550558122","source":{"id":"https://openalex.org/S195231649","display_name":"Entropy","issn_l":"1099-4300","issn":["1099-4300"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Entropy","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/1099-4300/21/2/195/pdf?version=1550558122","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5047230336","display_name":"Guillermo de Anda\u2010J\u00e1uregui","orcid":"https://orcid.org/0000-0002-7749-0365"},"institutions":[{"id":"https://openalex.org/I4210110970","display_name":"National Institute of Genomic Medicine","ror":"https://ror.org/01qjckx08","country_code":"MX","type":"government","lineage":["https://openalex.org/I4210095685","https://openalex.org/I4210110970"]}],"countries":["MX"],"is_corresponding":false,"raw_author_name":"Guillermo de Anda-J\u00e1uregui","raw_affiliation_strings":["Computational Genomics Division, National Institute of Genomic Medicine, Tlalpan 14610, Ciudad de M\u00e9xico, Mexico"],"raw_orcid":"https://orcid.org/0000-0002-7749-0365","affiliations":[{"raw_affiliation_string":"Computational Genomics Division, National Institute of Genomic Medicine, Tlalpan 14610, Ciudad de M\u00e9xico, Mexico","institution_ids":["https://openalex.org/I4210110970"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057082591","display_name":"Jes\u00fas Espinal\u2010Enr\u00edquez","orcid":"https://orcid.org/0000-0002-8707-2511"},"institutions":[{"id":"https://openalex.org/I167724894","display_name":"Universidad Aut\u00f3noma de la Ciudad de M\u00e9xico","ror":"https://ror.org/04q0r6m34","country_code":"MX","type":"education","lineage":["https://openalex.org/I167724894"]},{"id":"https://openalex.org/I4210110970","display_name":"National Institute of Genomic Medicine","ror":"https://ror.org/01qjckx08","country_code":"MX","type":"government","lineage":["https://openalex.org/I4210095685","https://openalex.org/I4210110970"]},{"id":"https://openalex.org/I8961855","display_name":"Universidad Nacional Aut\u00f3noma de M\u00e9xico","ror":"https://ror.org/01tmp8f25","country_code":"MX","type":"education","lineage":["https://openalex.org/I8961855"]}],"countries":["MX"],"is_corresponding":false,"raw_author_name":"Jes\u00fas Espinal-Enriquez","raw_affiliation_strings":["Centro de Ciencias de la Complejidad, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Coyoacan 04510, Ciudad de M\u00e9xico, Mexico","Computational Genomics Division, National Institute of Genomic Medicine, Tlalpan 14610, Ciudad de M\u00e9xico, Mexico"],"raw_orcid":"https://orcid.org/0000-0002-8707-2511","affiliations":[{"raw_affiliation_string":"Centro de Ciencias de la Complejidad, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Coyoacan 04510, Ciudad de M\u00e9xico, Mexico","institution_ids":["https://openalex.org/I167724894","https://openalex.org/I8961855"]},{"raw_affiliation_string":"Computational Genomics Division, National Institute of Genomic Medicine, Tlalpan 14610, Ciudad de M\u00e9xico, Mexico","institution_ids":["https://openalex.org/I4210110970"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5034200924","display_name":"Enrique Hern\u00e1ndez\u2013Lemus","orcid":"https://orcid.org/0000-0002-1872-1397"},"institutions":[{"id":"https://openalex.org/I167724894","display_name":"Universidad Aut\u00f3noma de la Ciudad de M\u00e9xico","ror":"https://ror.org/04q0r6m34","country_code":"MX","type":"education","lineage":["https://openalex.org/I167724894"]},{"id":"https://openalex.org/I4210110970","display_name":"National Institute of Genomic Medicine","ror":"https://ror.org/01qjckx08","country_code":"MX","type":"government","lineage":["https://openalex.org/I4210095685","https://openalex.org/I4210110970"]},{"id":"https://openalex.org/I8961855","display_name":"Universidad Nacional Aut\u00f3noma de M\u00e9xico","ror":"https://ror.org/01tmp8f25","country_code":"MX","type":"education","lineage":["https://openalex.org/I8961855"]}],"countries":["MX"],"is_corresponding":true,"raw_author_name":"Enrique Hern\u00e1ndez-Lemus","raw_affiliation_strings":["Centro de Ciencias de la Complejidad, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Coyoacan 04510, Ciudad de M\u00e9xico, Mexico","Computational Genomics Division, National Institute of Genomic Medicine, Tlalpan 14610, Ciudad de M\u00e9xico, Mexico"],"raw_orcid":"https://orcid.org/0000-0002-1872-1397","affiliations":[{"raw_affiliation_string":"Centro de Ciencias de la Complejidad, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Coyoacan 04510, Ciudad de M\u00e9xico, Mexico","institution_ids":["https://openalex.org/I167724894","https://openalex.org/I8961855"]},{"raw_affiliation_string":"Computational Genomics Division, National Institute of Genomic Medicine, Tlalpan 14610, Ciudad de M\u00e9xico, Mexico","institution_ids":["https://openalex.org/I4210110970"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5034200924"],"corresponding_institution_ids":["https://openalex.org/I167724894","https://openalex.org/I4210110970","https://openalex.org/I8961855"],"apc_list":{"value":2000,"currency":"CHF","value_usd":2165},"apc_paid":{"value":2000,"currency":"CHF","value_usd":2165},"fwci":1.0771,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.76141689,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"21","issue":"2","first_page":"195","last_page":"195"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9987999796867371,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9987999796867371,"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":0.9987999796867371,"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":0.9984999895095825,"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/breast-cancer","display_name":"Breast cancer","score":0.7400932908058167},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6774567365646362},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5906122922897339},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5488635897636414},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5032009482383728},{"id":"https://openalex.org/keywords/spatial-organization","display_name":"Spatial organization","score":0.500960111618042},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.46341270208358765},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.45277103781700134},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.44595223665237427},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.433986634016037},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.42576029896736145},{"id":"https://openalex.org/keywords/perspective","display_name":"Perspective (graphical)","score":0.4239642918109894},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.3004504442214966},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.2580965757369995},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.2510793209075928},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.11549150943756104}],"concepts":[{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.7400932908058167},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6774567365646362},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5906122922897339},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5488635897636414},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5032009482383728},{"id":"https://openalex.org/C175779824","wikidata":"https://www.wikidata.org/wiki/Q7574078","display_name":"Spatial organization","level":2,"score":0.500960111618042},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.46341270208358765},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.45277103781700134},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.44595223665237427},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.433986634016037},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.42576029896736145},{"id":"https://openalex.org/C12713177","wikidata":"https://www.wikidata.org/wiki/Q1900281","display_name":"Perspective (graphical)","level":2,"score":0.4239642918109894},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.3004504442214966},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.2580965757369995},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.2510793209075928},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.11549150943756104},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.3390/e21020195","is_oa":true,"landing_page_url":"https://doi.org/10.3390/e21020195","pdf_url":"https://www.mdpi.com/1099-4300/21/2/195/pdf?version=1550558122","source":{"id":"https://openalex.org/S195231649","display_name":"Entropy","issn_l":"1099-4300","issn":["1099-4300"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Entropy","raw_type":"journal-article"},{"id":"pmid:33266910","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33266910","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":"Entropy (Basel, Switzerland)","raw_type":null},{"id":"pmh:oai:doaj.org/article:486686664b374fd69b8067e8b8aa6e84","is_oa":true,"landing_page_url":"https://doaj.org/article/486686664b374fd69b8067e8b8aa6e84","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Entropy, Vol 21, Iss 2, p 195 (2019)","raw_type":"article"},{"id":"pmh:oai:mdpi.com:/1099-4300/21/2/195/","is_oa":true,"landing_page_url":"http://dx.doi.org/10.3390/e21020195","pdf_url":null,"source":{"id":"https://openalex.org/S4306400947","display_name":"MDPI (MDPI AG)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210097602","host_organization_name":"Multidisciplinary Digital Publishing Institute (Switzerland)","host_organization_lineage":["https://openalex.org/I4210097602"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Entropy","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:7514677","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7514677","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Entropy (Basel)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.3390/e21020195","is_oa":true,"landing_page_url":"https://doi.org/10.3390/e21020195","pdf_url":"https://www.mdpi.com/1099-4300/21/2/195/pdf?version=1550558122","source":{"id":"https://openalex.org/S195231649","display_name":"Entropy","issn_l":"1099-4300","issn":["1099-4300"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Entropy","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.800000011920929}],"awards":[{"id":"https://openalex.org/G1462614160","display_name":null,"funder_award_id":"CMM2016","funder_id":"https://openalex.org/F4320313224","funder_display_name":"Fundaci\u00f3n Marcos Moshinsky"},{"id":"https://openalex.org/G5514338584","display_name":null,"funder_award_id":"285544/2016","funder_id":"https://openalex.org/F4320321739","funder_display_name":"Consejo Nacional de Ciencia y Tecnolog\u00eda"},{"id":"https://openalex.org/G5699671234","display_name":null,"funder_award_id":"2115/2016","funder_id":"https://openalex.org/F4320321739","funder_display_name":"Consejo Nacional de Ciencia y Tecnolog\u00eda"}],"funders":[{"id":"https://openalex.org/F4320313224","display_name":"Fundaci\u00f3n Marcos Moshinsky","ror":null},{"id":"https://openalex.org/F4320321739","display_name":"Consejo Nacional de Ciencia y Tecnolog\u00eda","ror":"https://ror.org/059ex5q34"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":19,"referenced_works":["https://openalex.org/W1168214783","https://openalex.org/W1567885833","https://openalex.org/W1573871909","https://openalex.org/W1987320425","https://openalex.org/W2029668118","https://openalex.org/W2044702943","https://openalex.org/W2052448750","https://openalex.org/W2096283457","https://openalex.org/W2115464628","https://openalex.org/W2117692326","https://openalex.org/W2163296115","https://openalex.org/W2560367415","https://openalex.org/W2611050343","https://openalex.org/W2744275119","https://openalex.org/W2888427939","https://openalex.org/W2954560954","https://openalex.org/W3099289621","https://openalex.org/W3103634485","https://openalex.org/W3122273001"],"related_works":["https://openalex.org/W2010571965","https://openalex.org/W2002709996","https://openalex.org/W2613929436","https://openalex.org/W3128451840","https://openalex.org/W2347793859","https://openalex.org/W3151254369","https://openalex.org/W4387092964","https://openalex.org/W2103471012","https://openalex.org/W2966064480","https://openalex.org/W2380236774"],"abstract_inverted_index":{"Gene":[0,9],"regulation":[1],"may":[2],"be":[3],"studied":[4],"from":[5],"an":[6],"information-theoretic":[7],"perspective.":[8],"regulatory":[10,17,59],"programs":[11,30,60,89,118],"are":[12],"representations":[13],"of":[14,42,72,92,112],"the":[15,39,43,65,70,93,99],"complete":[16],"phenomenon":[18],"associated":[19,37],"to":[20,63,85,119],"each":[21],"biological":[22],"state.":[23],"In":[24,47],"diseases":[25],"such":[26],"as":[27],"cancer,":[28],"these":[29,117],"exhibit":[31,97],"major":[32],"alterations,":[33],"which":[34],"have":[35],"been":[36],"with":[38],"spatial":[40,123],"organization":[41],"genome":[44],"into":[45],"chromosomes.":[46,126],"this":[48],"work,":[49],"we":[50,115],"analyze":[51],"intrachromosomal,":[52],"or":[53,57],"cis-,":[54],"and":[55],"interchromosomal,":[56],"trans-gene":[58],"in":[61,69,90,98,105],"order":[62],"assess":[64],"differences":[66],"that":[67,77,95,104],"arise":[68],"context":[71],"breast":[73,100,106],"cancer.":[74],"We":[75],"find":[76],"using":[78],"information":[79],"theoretic":[80],"approaches,":[81],"it":[82],"is":[83,109],"possible":[84,122],"differentiate":[86],"cis-and":[87],"trans-regulatory":[88],"terms":[91],"changes":[94],"they":[96],"cancer":[101,107],"context,":[102],"indicating":[103],"there":[108],"a":[110,121],"loss":[111],"trans-regulation.":[113],"Finally,":[114],"use":[116],"reconstruct":[120],"relationship":[124],"between":[125]},"counts_by_year":[{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
