{"id":"https://openalex.org/W2792464959","doi":"https://doi.org/10.1093/bioinformatics/bty182","title":"GENEASE: real time bioinformatics tool for multi-omics and disease ontology exploration, analysis and visualization","display_name":"GENEASE: real time bioinformatics tool for multi-omics and disease ontology exploration, analysis and visualization","publication_year":2018,"publication_date":"2018-03-23","ids":{"openalex":"https://openalex.org/W2792464959","doi":"https://doi.org/10.1093/bioinformatics/bty182","mag":"2792464959"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty182","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty182","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/18/3160/25731729/bty182.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"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/34/18/3160/25731729/bty182.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010746144","display_name":"Sudhir Ghandikota","orcid":"https://orcid.org/0000-0003-3996-992X"},"institutions":[{"id":"https://openalex.org/I1285204247","display_name":"Cincinnati Children's Hospital Medical Center","ror":"https://ror.org/01hcyya48","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285204247"]},{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Sudhir Ghandikota","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, University of Cincinnati, Cincinnati, OH, USA","Department of Pediatrics, Cincinnati Children\u2019s Hospital Medical Center, University of Cincinnati, Cincinnati, OH, USA"],"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, University of Cincinnati, Cincinnati, OH, USA","institution_ids":["https://openalex.org/I63135867"]},{"raw_affiliation_string":"Department of Pediatrics, Cincinnati Children\u2019s Hospital Medical Center, University of Cincinnati, Cincinnati, OH, USA","institution_ids":["https://openalex.org/I1285204247","https://openalex.org/I63135867"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023724713","display_name":"Gurjit K. Khurana Hershey","orcid":"https://orcid.org/0000-0001-6663-977X"},"institutions":[{"id":"https://openalex.org/I1285204247","display_name":"Cincinnati Children's Hospital Medical Center","ror":"https://ror.org/01hcyya48","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285204247"]},{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gurjit K Khurana Hershey","raw_affiliation_strings":["Department of Pediatrics, Cincinnati Children\u2019s Hospital Medical Center, University of Cincinnati, Cincinnati, OH, USA"],"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Cincinnati Children\u2019s Hospital Medical Center, University of Cincinnati, Cincinnati, OH, USA","institution_ids":["https://openalex.org/I1285204247","https://openalex.org/I63135867"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5009024608","display_name":"Tesfaye B. Mersha","orcid":"https://orcid.org/0000-0002-9189-8447"},"institutions":[{"id":"https://openalex.org/I63135867","display_name":"University of Cincinnati","ror":"https://ror.org/01e3m7079","country_code":"US","type":"education","lineage":["https://openalex.org/I63135867"]},{"id":"https://openalex.org/I1285204247","display_name":"Cincinnati Children's Hospital Medical Center","ror":"https://ror.org/01hcyya48","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285204247"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tesfaye B Mersha","raw_affiliation_strings":["Department of Pediatrics, Cincinnati Children\u2019s Hospital Medical Center, University of Cincinnati, Cincinnati, OH, USA"],"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Cincinnati Children\u2019s Hospital Medical Center, University of Cincinnati, Cincinnati, OH, USA","institution_ids":["https://openalex.org/I1285204247","https://openalex.org/I63135867"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5010746144"],"corresponding_institution_ids":["https://openalex.org/I1285204247","https://openalex.org/I63135867"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.7465,"has_fulltext":false,"cited_by_count":25,"citation_normalized_percentile":{"value":0.84849506,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"34","issue":"18","first_page":"3160","last_page":"3168"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9987000226974487,"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":0.9987000226974487,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.9962999820709229,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10015","display_name":"Genomics and Phylogenetic Studies","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/computer-science","display_name":"Computer science","score":0.7161651253700256},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.5593582391738892},{"id":"https://openalex.org/keywords/analytics","display_name":"Analytics","score":0.5028757452964783},{"id":"https://openalex.org/keywords/data-integration","display_name":"Data integration","score":0.48597466945648193},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.4786219000816345},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.4771251678466797},{"id":"https://openalex.org/keywords/genome-browser","display_name":"Genome browser","score":0.45132508873939514},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3985886573791504},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.3821849226951599},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.32838112115859985},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.31893783807754517},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.18326109647750854},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.11268052458763123}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7161651253700256},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.5593582391738892},{"id":"https://openalex.org/C79158427","wikidata":"https://www.wikidata.org/wiki/Q485396","display_name":"Analytics","level":2,"score":0.5028757452964783},{"id":"https://openalex.org/C72634772","wikidata":"https://www.wikidata.org/wiki/Q386824","display_name":"Data integration","level":2,"score":0.48597466945648193},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.4786219000816345},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.4771251678466797},{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.45132508873939514},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3985886573791504},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.3821849226951599},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.32838112115859985},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.31893783807754517},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.18326109647750854},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.11268052458763123},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bty182","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty182","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/18/3160/25731729/bty182.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":"pmh:oai:pubmedcentral.nih.gov:6137982","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6137982","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty182","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty182","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/18/3160/25731729/bty182.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":[],"awards":[{"id":"https://openalex.org/G4422652973","display_name":null,"funder_award_id":"R01HL132344","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2792464959.pdf","grobid_xml":"https://content.openalex.org/works/W2792464959.grobid-xml"},"referenced_works_count":24,"referenced_works":["https://openalex.org/W1487796393","https://openalex.org/W1490161904","https://openalex.org/W1964895626","https://openalex.org/W1986250066","https://openalex.org/W1996588166","https://openalex.org/W2011290121","https://openalex.org/W2016345560","https://openalex.org/W2019983262","https://openalex.org/W2043548405","https://openalex.org/W2055246083","https://openalex.org/W2070050178","https://openalex.org/W2108539496","https://openalex.org/W2109108939","https://openalex.org/W2110065044","https://openalex.org/W2124649657","https://openalex.org/W2133465414","https://openalex.org/W2152274187","https://openalex.org/W2259938310","https://openalex.org/W2290195878","https://openalex.org/W2519198604","https://openalex.org/W2557385283","https://openalex.org/W2559028527","https://openalex.org/W2559588208","https://openalex.org/W2918086501"],"related_works":["https://openalex.org/W2393185060","https://openalex.org/W4234269430","https://openalex.org/W3209087738","https://openalex.org/W2066992345","https://openalex.org/W2765161871","https://openalex.org/W2099626126","https://openalex.org/W212334026","https://openalex.org/W2987829932","https://openalex.org/W2100791897","https://openalex.org/W3021942134"],"abstract_inverted_index":{"Abstract":[0],"Motivation":[1],"Advances":[2],"in":[3,120,169,197,214],"high-throughput":[4],"sequencing":[5],"technologies":[6],"have":[7],"made":[8],"it":[9],"possible":[10],"to":[11,41,49,56,65,73,97,108,144,176,204],"generate":[12,38],"multiple":[13,110],"omics":[14,26],"data":[15,27,89,248],"at":[16,32,243,251],"an":[17,46,121],"unprecedented":[18],"rate":[19,31],"and":[20,37,58,61,82,91,99,112,148,151,166,184,207,211,233,236],"scale.":[21],"The":[22],"accumulation":[23],"of":[24,53],"these":[25,63,75,101],"far":[28],"outpaces":[29],"the":[30,127],"which":[33],"biologists":[34],"can":[35,239],"mine":[36],"new":[39],"hypothesis":[40],"test":[42],"experimentally.":[43],"There":[44],"is":[45,218],"urgent":[47],"need":[48],"develop":[50],"a":[51,85,138,170,219],"myriad":[52],"powerful":[54],"tools":[55,96],"efficiently":[57],"effectively":[59],"search":[60],"filter":[62],"resources":[64,76],"address":[66],"specific":[67],"post-GWAS":[68],"functional":[69,183],"genomics":[70],"questions.":[71],"However,":[72],"date,":[74],"are":[77,103,129,249],"scattered":[78],"across":[79],"several":[80],"databases":[81,102,153,196,203],"often":[83],"lack":[84],"unified":[86],"portal":[87],"for":[88,115,187,227],"annotation":[90],"analytics.":[92],"In":[93,132],"addition,":[94],"existing":[95],"analyze":[98],"visualize":[100],"highly":[104],"fragmented,":[105],"resulting":[106],"researchers":[107],"access":[109],"applications":[111],"manual":[113,232],"interventions":[114],"each":[116],"gene":[117],"or":[118],"variant":[119],"ad":[122],"hoc":[123],"fashion":[124],"until":[125],"all":[126],"questions":[128],"answered.":[130],"Results":[131],"this":[133],"study,":[134],"we":[135],"present":[136],"GENEASE,":[137],"web-based":[139],"one-stop":[140],"bioinformatics":[141],"tool":[142,221],"designed":[143],"not":[145],"only":[146],"query":[147],"explore":[149],"multi-omics":[150],"phenotype":[152],"(e.g.":[154],"GTEx,":[155],"ClinVar,":[156],"dbGaP,":[157],"GWAS":[158],"Catalog,":[159],"ENCODE,":[160],"Roadmap":[161],"Epigenomics,":[162],"KEGG,":[163],"Reactome,":[164],"Gene":[165],"Phenotype":[167],"Ontology)":[168],"single":[171],"web":[172],"interface":[173,224],"but":[174],"also":[175],"perform":[177],"seamless":[178],"post":[179],"genome-wide":[180],"association":[181],"downstream":[182],"overlap":[185,212],"analysis":[186,213],"non-coding":[188],"regulatory":[189],"variants.":[190],"GENEASE":[191,238],"accesses":[192],"over":[193],"50":[194],"different":[195],"public":[198],"domain":[199],"including":[200,230],"model":[201],"organism-specific":[202],"facilitate":[205],"gene/variant":[206],"disease":[208],"exploration,":[209],"enrichment":[210],"real":[215],"time.":[216],"It":[217],"user-friendly":[220],"with":[222],"point-and-click":[223],"containing":[225],"links":[226],"support":[228],"information":[229,246],"user":[231],"examples.":[234],"Availability":[235],"implementation":[237],"be":[240],"accessed":[241],"freely":[242],"http://research.cchmc.org/mershalab/GENEASE/login.html.":[244],"Supplementary":[245,247],"available":[250],"Bioinformatics":[252],"online.":[253]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":12},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}