{"id":"https://openalex.org/W4206102614","doi":"https://doi.org/10.1109/bibm52615.2021.9669832","title":"Identification of Crosstalk between Biological Pathway Routes in Cancer Cohorts","display_name":"Identification of Crosstalk between Biological Pathway Routes in Cancer Cohorts","publication_year":2021,"publication_date":"2021-12-09","ids":{"openalex":"https://openalex.org/W4206102614","doi":"https://doi.org/10.1109/bibm52615.2021.9669832"},"language":"en","primary_location":{"id":"doi:10.1109/bibm52615.2021.9669832","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm52615.2021.9669832","pdf_url":null,"source":{"id":"https://openalex.org/S4363607735","display_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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/A5045068038","display_name":"Pujan Joshi","orcid":null},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Pujan Joshi","raw_affiliation_strings":["Computer Science and Engineering Department, University of Connecticut, Storrs, CT, USA"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering Department, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100726968","display_name":"Honglin Wang","orcid":"https://orcid.org/0009-0004-6408-0772"},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Honglin Wang","raw_affiliation_strings":["Computer Science and Engineering Department, University of Connecticut, Storrs, CT, USA"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering Department, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018602801","display_name":"Salvatore Jaramillo","orcid":null},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Salvatore Jaramillo","raw_affiliation_strings":["Molecular and Cell Biology Department, University of Connecticut, Storrs, CT, USA"],"affiliations":[{"raw_affiliation_string":"Molecular and Cell Biology Department, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076114384","display_name":"Seung-Hyun Hong","orcid":"https://orcid.org/0000-0003-2848-6666"},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Seung-Hyun Hong","raw_affiliation_strings":["Computer Science and Engineering Department, University of Connecticut, Storrs, CT, USA"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering Department, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029257492","display_name":"Charles Giardina","orcid":null},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Charles Giardina","raw_affiliation_strings":["Molecular and Cell Biology Department, University of Connecticut, Storrs, CT, USA"],"affiliations":[{"raw_affiliation_string":"Molecular and Cell Biology Department, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5112474888","display_name":"Dong\u2010Guk Shin","orcid":"https://orcid.org/0009-0004-4649-7363"},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dong-Guk Shin","raw_affiliation_strings":["Computer Science and Engineering Department, University of Connecticut, Storrs, CT, USA"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering Department, University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5045068038"],"corresponding_institution_ids":["https://openalex.org/I140172145"],"apc_list":null,"apc_paid":null,"fwci":0.5188,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.57156134,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"513","issue":null,"first_page":"245","last_page":"248"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9933000206947327,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9779000282287598,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/crosstalk","display_name":"Crosstalk","score":0.8898504376411438},{"id":"https://openalex.org/keywords/signal-transduction","display_name":"Signal transduction","score":0.5715550184249878},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.54825758934021},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.5095770359039307},{"id":"https://openalex.org/keywords/pathway-analysis","display_name":"Pathway analysis","score":0.4919409453868866},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.41457223892211914},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.40900522470474243},{"id":"https://openalex.org/keywords/cancer-research","display_name":"Cancer research","score":0.3516782522201538},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.35001230239868164},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.29872405529022217},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2559359669685364},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.13570663332939148},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.08653295040130615},{"id":"https://openalex.org/keywords/electronic-engineering","display_name":"Electronic engineering","score":0.08428555727005005}],"concepts":[{"id":"https://openalex.org/C169822122","wikidata":"https://www.wikidata.org/wiki/Q230187","display_name":"Crosstalk","level":2,"score":0.8898504376411438},{"id":"https://openalex.org/C62478195","wikidata":"https://www.wikidata.org/wiki/Q828130","display_name":"Signal transduction","level":2,"score":0.5715550184249878},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.54825758934021},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.5095770359039307},{"id":"https://openalex.org/C2779230013","wikidata":"https://www.wikidata.org/wiki/Q25303877","display_name":"Pathway analysis","level":4,"score":0.4919409453868866},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.41457223892211914},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.40900522470474243},{"id":"https://openalex.org/C502942594","wikidata":"https://www.wikidata.org/wiki/Q3421914","display_name":"Cancer research","level":1,"score":0.3516782522201538},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.35001230239868164},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.29872405529022217},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2559359669685364},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.13570663332939148},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.08653295040130615},{"id":"https://openalex.org/C24326235","wikidata":"https://www.wikidata.org/wiki/Q126095","display_name":"Electronic engineering","level":1,"score":0.08428555727005005}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm52615.2021.9669832","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm52615.2021.9669832","pdf_url":null,"source":{"id":"https://openalex.org/S4363607735","display_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.5099999904632568}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":17,"referenced_works":["https://openalex.org/W1969104713","https://openalex.org/W2003031595","https://openalex.org/W2017310281","https://openalex.org/W2061961527","https://openalex.org/W2126547130","https://openalex.org/W2132022337","https://openalex.org/W2140519688","https://openalex.org/W2149441684","https://openalex.org/W2152915449","https://openalex.org/W2158821976","https://openalex.org/W2159482845","https://openalex.org/W2175798269","https://openalex.org/W2906892110","https://openalex.org/W2972584423","https://openalex.org/W3092014753","https://openalex.org/W3131706761","https://openalex.org/W3204256587"],"related_works":["https://openalex.org/W1971820762","https://openalex.org/W2015096613","https://openalex.org/W2010009005","https://openalex.org/W4211148761","https://openalex.org/W178306964","https://openalex.org/W2140519688","https://openalex.org/W4220876657","https://openalex.org/W2124343538","https://openalex.org/W2549860619","https://openalex.org/W4206102614"],"abstract_inverted_index":{"Signal":[0],"transduction":[1],"pathways":[2],"can":[3],"affect":[4],"each":[5,81,94],"other":[6],"through":[7],"crosstalk":[8,29,63,82],"between":[9,30],"one":[10,50,71],"or":[11],"more":[12],"shared":[13],"components.":[14],"In":[15],"this":[16,136],"paper,":[17],"we":[18],"present":[19],"a":[20,24,46,53],"framework":[21,39],"that":[22],"uses":[23],"route-based":[25],"approach":[26],"to":[27,52,73,130],"identify":[28],"signaling":[31],"pathway":[32,51,72],"routes":[33,43],"in":[34,93,99],"different":[35],"cancer":[36,95,119],"cohorts.":[37],"The":[38,122],"identifies":[40],"all":[41],"possible":[42],"originating":[44],"from":[45,67,121],"ligand/receptor":[47],"(LR)":[48],"of":[49,57,70,75,101,106,116,135],"transcription":[54],"factor":[55],"(TF)":[56],"another":[58,76],"pathway.":[59],"Then,":[60],"the":[61,68,132],"downstream":[62],"routes,":[64],"which":[65],"originate":[66],"TF":[69],"ligand":[74],"pathway,":[77],"are":[78,88,128],"identified.":[79],"For":[80],"route,":[83],"activity":[84,92],"scores":[85],"and":[86,109],"p-values":[87],"computed.":[89],"Overall":[90],"route":[91],"cohort":[96],"was":[97],"assessed":[98],"terms":[100],"two":[102],"summary":[103],"metrics,":[104],"\u201cProportion":[105],"Significance\u201d":[107],"(PS)":[108],"\u201cAverage":[110],"Route":[111],"Score\u201d":[112],"(ARS).":[113],"Case":[114],"studies":[115],"five":[117],"human":[118],"cohorts":[120],"Cancer":[123],"Genome":[124],"Atlas":[125],"(TCGA)":[126],"repository":[127],"presented":[129],"demonstrate":[131],"discovery":[133],"value":[134],"approach.":[137]},"counts_by_year":[{"year":2024,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
