{"id":"https://openalex.org/W2025610313","doi":"https://doi.org/10.1109/gensips.2013.6735939","title":"Modeling hypoxia stress response pathways","display_name":"Modeling hypoxia stress response pathways","publication_year":2013,"publication_date":"2013-11-01","ids":{"openalex":"https://openalex.org/W2025610313","doi":"https://doi.org/10.1109/gensips.2013.6735939","mag":"2025610313"},"language":"en","primary_location":{"id":"doi:10.1109/gensips.2013.6735939","is_oa":false,"landing_page_url":"https://doi.org/10.1109/gensips.2013.6735939","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2013 IEEE International Workshop on Genomic Signal Processing and Statistics","raw_type":"proceedings-article"},"type":"conference-abstract","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/A5013536995","display_name":"Rajani Varghese","orcid":null},"institutions":[{"id":"https://openalex.org/I91045830","display_name":"Texas A&M University","ror":"https://ror.org/01f5ytq51","country_code":"US","type":"education","lineage":["https://openalex.org/I91045830"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rajani Varghese","raw_affiliation_strings":["Texas A & M University, Electrical and Computer Engineering, College Station, 77843-3128, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Texas A & M University, Electrical and Computer Engineering, College Station, 77843-3128, USA","institution_ids":["https://openalex.org/I91045830"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073514302","display_name":"Sriram Sridharan","orcid":"https://orcid.org/0000-0002-4811-8193"},"institutions":[{"id":"https://openalex.org/I91045830","display_name":"Texas A&M University","ror":"https://ror.org/01f5ytq51","country_code":"US","type":"education","lineage":["https://openalex.org/I91045830"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sriram Sridharan","raw_affiliation_strings":["Texas A & M University, Electrical and Computer Engineering, College Station, 77843-3128, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Texas A & M University, Electrical and Computer Engineering, College Station, 77843-3128, USA","institution_ids":["https://openalex.org/I91045830"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045462352","display_name":"Aniruddha Datta","orcid":"https://orcid.org/0000-0003-1213-3807"},"institutions":[{"id":"https://openalex.org/I91045830","display_name":"Texas A&M University","ror":"https://ror.org/01f5ytq51","country_code":"US","type":"education","lineage":["https://openalex.org/I91045830"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Aniruddha Datta","raw_affiliation_strings":["Texas A & M University, Electrical and Computer Engineering, College Station, 77843-3128, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Texas A & M University, Electrical and Computer Engineering, College Station, 77843-3128, USA","institution_ids":["https://openalex.org/I91045830"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5032872866","display_name":"Jijayanagaram Venkatraj","orcid":null},"institutions":[{"id":"https://openalex.org/I91045830","display_name":"Texas A&M University","ror":"https://ror.org/01f5ytq51","country_code":"US","type":"education","lineage":["https://openalex.org/I91045830"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jijayanagaram Venkatraj","raw_affiliation_strings":["Texas A & M University, Vet Integrative Biosciences, College Station, 77843-4458, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Texas A & M University, Vet Integrative Biosciences, College Station, 77843-4458, USA","institution_ids":["https://openalex.org/I91045830"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I91045830"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"84","last_page":"84"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10631","display_name":"Cancer, Hypoxia, and Metabolism","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10631","display_name":"Cancer, Hypoxia, and Metabolism","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T12910","display_name":"Eicosanoids and Hypertension Pharmacology","score":0.9555000066757202,"subfield":{"id":"https://openalex.org/subfields/1303","display_name":"Biochemistry"},"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/T11482","display_name":"RNA modifications and cancer","score":0.9472000002861023,"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/aryl-hydrocarbon-receptor-nuclear-translocator","display_name":"Aryl hydrocarbon receptor nuclear translocator","score":0.9066933393478394},{"id":"https://openalex.org/keywords/pas-domain","display_name":"PAS domain","score":0.6696138381958008},{"id":"https://openalex.org/keywords/hydroxylation","display_name":"Hydroxylation","score":0.6680504679679871},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.6569353342056274},{"id":"https://openalex.org/keywords/hypoxia-inducible-factor-1","display_name":"Hypoxia-Inducible Factor 1","score":0.6555576324462891},{"id":"https://openalex.org/keywords/hypoxia-inducible-factors","display_name":"Hypoxia-inducible factors","score":0.580971360206604},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.5720759630203247},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.548570990562439},{"id":"https://openalex.org/keywords/hypoxia","display_name":"Hypoxia (environmental)","score":0.5476365089416504},{"id":"https://openalex.org/keywords/hif1a","display_name":"HIF1A","score":0.5067937970161438},{"id":"https://openalex.org/keywords/dna-binding-domain","display_name":"DNA-binding domain","score":0.48023706674575806},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.3959801197052002},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.33034437894821167},{"id":"https://openalex.org/keywords/oxygen","display_name":"Oxygen","score":0.30670464038848877},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.26295608282089233},{"id":"https://openalex.org/keywords/aryl-hydrocarbon-receptor","display_name":"Aryl hydrocarbon receptor","score":0.258472740650177},{"id":"https://openalex.org/keywords/enzyme","display_name":"Enzyme","score":0.18078956007957458}],"concepts":[{"id":"https://openalex.org/C45815257","wikidata":"https://www.wikidata.org/wiki/Q109984923","display_name":"Aryl hydrocarbon receptor nuclear translocator","level":5,"score":0.9066933393478394},{"id":"https://openalex.org/C2778875234","wikidata":"https://www.wikidata.org/wiki/Q36626","display_name":"PAS domain","level":4,"score":0.6696138381958008},{"id":"https://openalex.org/C2781109383","wikidata":"https://www.wikidata.org/wiki/Q898497","display_name":"Hydroxylation","level":3,"score":0.6680504679679871},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.6569353342056274},{"id":"https://openalex.org/C2909350873","wikidata":"https://www.wikidata.org/wiki/Q104598479","display_name":"Hypoxia-Inducible Factor 1","level":4,"score":0.6555576324462891},{"id":"https://openalex.org/C160450060","wikidata":"https://www.wikidata.org/wiki/Q104598479","display_name":"Hypoxia-inducible factors","level":3,"score":0.580971360206604},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.5720759630203247},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.548570990562439},{"id":"https://openalex.org/C7836513","wikidata":"https://www.wikidata.org/wiki/Q1641506","display_name":"Hypoxia (environmental)","level":3,"score":0.5476365089416504},{"id":"https://openalex.org/C31194975","wikidata":"https://www.wikidata.org/wiki/Q20970095","display_name":"HIF1A","level":3,"score":0.5067937970161438},{"id":"https://openalex.org/C33987129","wikidata":"https://www.wikidata.org/wiki/Q13479514","display_name":"DNA-binding domain","level":4,"score":0.48023706674575806},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.3959801197052002},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.33034437894821167},{"id":"https://openalex.org/C540031477","wikidata":"https://www.wikidata.org/wiki/Q629","display_name":"Oxygen","level":2,"score":0.30670464038848877},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.26295608282089233},{"id":"https://openalex.org/C33594762","wikidata":"https://www.wikidata.org/wiki/Q155750","display_name":"Aryl hydrocarbon receptor","level":4,"score":0.258472740650177},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.18078956007957458},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/gensips.2013.6735939","is_oa":false,"landing_page_url":"https://doi.org/10.1109/gensips.2013.6735939","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2013 IEEE International Workshop on Genomic Signal Processing and Statistics","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.8899999856948853,"id":"https://metadata.un.org/sdg/7","display_name":"Affordable and clean energy"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W4247038846","https://openalex.org/W2117186539","https://openalex.org/W4251360078","https://openalex.org/W4256606865","https://openalex.org/W1988163785","https://openalex.org/W1899817927","https://openalex.org/W2187832142","https://openalex.org/W1985348281","https://openalex.org/W2369096051","https://openalex.org/W2595680219"],"abstract_inverted_index":{"Summary":[0],"form":[1],"only":[2],"given.":[3],"Hypoxic":[4],"stress":[5,284,294,328,354],"is":[6,21,28,125,160,185,202,210,295,307,331,365,383],"a":[7,95,101,360,373],"consequence":[8],"of":[9,17,39,46,97,103,123,172,180,240,273,282,312,326,337,352,363,376,379,389],"the":[10,15,18,29,34,40,44,63,162,166,178,190,220,228,231,237,241,280,287,302,310,335,358,377],"decrease":[11],"in":[12,33,165,177,214,298,315],"oxygen":[13,48,159,306],"reaching":[14],"tissues":[16],"body.":[19],"Oxygen":[20,167],"essential":[22],"for":[23,65,70,305,333,372],"energy":[24],"production,":[25],"since":[26],"it":[27,364],"terminal":[30],"electron":[31],"acceptor":[32],"Electron":[35],"Transport":[36],"Chain":[37],"(ETC)":[38],"mitochondria.":[41],"This":[42,369],"makes":[43],"condition":[45],"low":[47],"availability":[49],"(hypoxia)":[50],"deleterious":[51],"to":[52,249,341,344],"living":[53],"cells":[54,248],"and":[55,75,91,120,131,154,189,201,222,226,258,319,343,367],"proper":[56,324],"adaptation":[57,274,340],"techniques":[58],"must":[59],"be":[60],"employed":[61],"by":[62,136,187,204,254,266,286,309],"cell":[64,98,264,276,339],"survival.":[66],"The":[67,271,289],"main":[68],"sensors":[69],"cellular":[71],"partial":[72],"pressure":[73],"alterations":[74],"hypoxia":[76,327,342,353,380],"are":[77,114],"three":[78,116],"hydroxylases,":[79],"known":[80],"as":[81,108],"prolyl":[82],"hydroxylase":[83],"domain":[84,148,171],"containing":[85,149],"proteins":[86],"(PHDs)":[87],"namely":[88],"PHD1,":[89],"PHD2":[90,209],"PHD3.":[92],"They":[93],"initiate":[94],"cascade":[96],"signaling":[99],"through":[100],"family":[102],"transcription":[104],"factors":[105],"appropriately":[106],"named":[107],"Hypoxia":[109,232],"Inducible":[110],"factor":[111,133],"(HIF).":[112],"There":[113],"currently":[115],"members":[117],"HIF-1,":[118],"HIF-2":[119],"HIF-3,":[121],"each":[122],"them":[124],"an":[126,251],"HIF":[127],"heterodimer,":[128],"possessing":[129],"\u03b1":[130],"\u03b2":[132],"subunits":[134],"coded":[135],"6":[137],"genes":[138,246,313],"(HIF1\u03b1,":[139],"ARNT":[140],"(Aryl":[141],"Hydrocarbon":[142],"Nuclear":[143],"Translocator),":[144],"EPAS1":[145],"(Endothelial":[146],"PAS":[147],"protein":[150,199],"1),":[151],"ARNT2,":[152],"HIF3\u03b1":[153],"ARNT3":[155],"respectively).":[156],"When":[157],"enough":[158],"available,":[161],"proline":[163],"residue":[164],"Dependent":[168],"Degradation":[169],"(ODD)":[170],"HIF-1\u03b1":[173,184,192,215,218],"undergoes":[174],"non-reversible":[175],"hydroxylation":[176],"presence":[179],"PHD2.":[181],"During":[182],"normoxia,":[183],"hydroxylated":[186,191],"PHD2,":[188],"interacts":[193],"with":[194,224],"von":[195],"Hippel-Lindua":[196],"tumor":[197,338],"suppressor":[198],"(VHL)":[200],"degraded":[203],"ubiquitination.":[205],"But":[206],"during":[207,292],"hypoxia,":[208],"inhibited":[211],"which":[212,382],"results":[213],"stabilization.":[216],"Stabilized":[217],"enters":[219],"nucleus":[221],"heterodimerizes":[223],"HIF-1\u03b2":[225],"binds":[227],"DNA":[229],"via":[230],"Response":[233],"Elements":[234],"(HRE)":[235],"within":[236],"promoter":[238],"regions":[239],"target":[242,245],"genes.":[243],"HIF-regulated":[244],"enable":[247],"induce":[250],"adaptive":[252,290],"response":[253,291,329,355],"increasing":[255],"glycolysis,":[256],"angiogenesis":[257],"other":[259,320],"patho-physiological":[260],"events":[261],"or":[262,269,275],"undergo":[263],"death":[265,277],"promoting":[267],"apoptosis":[268],"necrosis.":[270],"decision":[272],"depends":[278],"on":[279],"extent":[281],"hypoxic":[283,293],"faced":[285],"cells.":[288],"mainly":[296],"observed":[297],"solid":[299],"tumors,":[300],"where":[301],"increased":[303],"demand":[304],"met":[308],"up-regulation":[311],"involved":[314],"angiogenesis,":[316],"vasculogenesis,":[317],"glycolysis":[318],"physiological":[321],"events.":[322],"Hence,":[323],"understanding":[325,334,375],"pathway":[330],"critical":[332],"mechanism":[336],"develop":[345],"efficient":[346],"therapeutic":[347],"interventions.":[348],"Using":[349],"prior":[350],"knowledge":[351],"pathways":[356],"from":[357,385],"literature,":[359],"Boolean":[361],"model":[362,370],"developed":[366],"simulated.":[368],"allows":[371],"better":[374],"perturbations":[378],"response,":[381],"derived":[384],"complex":[386],"multivariate":[387],"interactions":[388],"biological":[390],"molecules.":[391]},"counts_by_year":[{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":3}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}