{"id":"https://openalex.org/W4288421632","doi":"https://doi.org/10.1145/3535508.3545517","title":"A multi-omics graph database for data integration and knowledge extraction","display_name":"A multi-omics graph database for data integration and knowledge extraction","publication_year":2022,"publication_date":"2022-07-28","ids":{"openalex":"https://openalex.org/W4288421632","doi":"https://doi.org/10.1145/3535508.3545517"},"language":"en","primary_location":{"id":"doi:10.1145/3535508.3545517","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3535508.3545517","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","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/A5100365913","display_name":"Suyeon Kim","orcid":"https://orcid.org/0000-0001-9338-3132"},"institutions":[{"id":"https://openalex.org/I122266389","display_name":"University of Nebraska at Omaha","ror":"https://ror.org/04yrkc140","country_code":"US","type":"education","lineage":["https://openalex.org/I122266389"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Suyeon Kim","raw_affiliation_strings":["University of Nebraska at Omaha, Omaha, Nebraska"],"affiliations":[{"raw_affiliation_string":"University of Nebraska at Omaha, Omaha, Nebraska","institution_ids":["https://openalex.org/I122266389"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008692578","display_name":"Ishwor Thapa","orcid":"https://orcid.org/0000-0002-3594-1631"},"institutions":[{"id":"https://openalex.org/I122266389","display_name":"University of Nebraska at Omaha","ror":"https://ror.org/04yrkc140","country_code":"US","type":"education","lineage":["https://openalex.org/I122266389"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ishwor Thapa","raw_affiliation_strings":["University of Nebraska at Omaha, Omaha, Nebraska"],"affiliations":[{"raw_affiliation_string":"University of Nebraska at Omaha, Omaha, Nebraska","institution_ids":["https://openalex.org/I122266389"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5047703641","display_name":"Hesham Ali","orcid":"https://orcid.org/0000-0001-6675-7987"},"institutions":[{"id":"https://openalex.org/I122266389","display_name":"University of Nebraska at Omaha","ror":"https://ror.org/04yrkc140","country_code":"US","type":"education","lineage":["https://openalex.org/I122266389"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hesham Ali","raw_affiliation_strings":["University of Nebraska at Omaha, Omaha, Nebraska"],"affiliations":[{"raw_affiliation_string":"University of Nebraska at Omaha, Omaha, Nebraska","institution_ids":["https://openalex.org/I122266389"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5100365913"],"corresponding_institution_ids":["https://openalex.org/I122266389"],"apc_list":null,"apc_paid":null,"fwci":0.0867,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.42467943,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"6"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9976999759674072,"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":0.9976999759674072,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9876999855041504,"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":0.9811999797821045,"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":0.7099944353103638},{"id":"https://openalex.org/keywords/metadata","display_name":"Metadata","score":0.6479470133781433},{"id":"https://openalex.org/keywords/data-integration","display_name":"Data integration","score":0.6419762372970581},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.6261223554611206},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.5657875537872314},{"id":"https://openalex.org/keywords/omics","display_name":"Omics","score":0.4685191810131073},{"id":"https://openalex.org/keywords/microbiome","display_name":"Microbiome","score":0.45004284381866455},{"id":"https://openalex.org/keywords/knowledge-extraction","display_name":"Knowledge extraction","score":0.43909990787506104},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.42229175567626953},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.38107067346572876},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.23388847708702087},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.1929236352443695},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13306957483291626}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7099944353103638},{"id":"https://openalex.org/C93518851","wikidata":"https://www.wikidata.org/wiki/Q180160","display_name":"Metadata","level":2,"score":0.6479470133781433},{"id":"https://openalex.org/C72634772","wikidata":"https://www.wikidata.org/wiki/Q386824","display_name":"Data integration","level":2,"score":0.6419762372970581},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.6261223554611206},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.5657875537872314},{"id":"https://openalex.org/C157585117","wikidata":"https://www.wikidata.org/wiki/Q158666","display_name":"Omics","level":2,"score":0.4685191810131073},{"id":"https://openalex.org/C143121216","wikidata":"https://www.wikidata.org/wiki/Q1330402","display_name":"Microbiome","level":2,"score":0.45004284381866455},{"id":"https://openalex.org/C120567893","wikidata":"https://www.wikidata.org/wiki/Q1582085","display_name":"Knowledge extraction","level":2,"score":0.43909990787506104},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.42229175567626953},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.38107067346572876},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.23388847708702087},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.1929236352443695},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13306957483291626},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3535508.3545517","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3535508.3545517","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":14,"referenced_works":["https://openalex.org/W1901435509","https://openalex.org/W2108332624","https://openalex.org/W2162078360","https://openalex.org/W2252298505","https://openalex.org/W2765635284","https://openalex.org/W2947189704","https://openalex.org/W2948018512","https://openalex.org/W2949311246","https://openalex.org/W3085433835","https://openalex.org/W3104826446","https://openalex.org/W3132024224","https://openalex.org/W3211779138","https://openalex.org/W4213293559","https://openalex.org/W4242289937"],"related_works":["https://openalex.org/W2392768766","https://openalex.org/W2058118494","https://openalex.org/W2924366642","https://openalex.org/W3173875945","https://openalex.org/W3159101980","https://openalex.org/W2966125521","https://openalex.org/W4224949116","https://openalex.org/W3003192283","https://openalex.org/W2996736193","https://openalex.org/W2909364225"],"abstract_inverted_index":{"Major":[0],"recent":[1],"advances":[2],"in":[3],"sequencing":[4],"technologies":[5],"have":[6,19],"created":[7],"new":[8,141],"opportunities":[9],"for":[10],"studying":[11],"the":[12,42,65,77,105,113],"complex":[13],"microbiome":[14,46],"domain.":[15],"However,":[16],"microbial":[17,34,61],"communities":[18],"many":[20],"unknown":[21],"roles":[22],"and":[23,55,80,101,119],"unclear":[24],"impacts":[25],"on":[26],"their":[27],"host":[28],"environment.":[29],"The":[30],"increased":[31],"availability":[32],"of":[33,67,82,93],"omics":[35,68],"data":[36],"associated":[37],"with":[38,64],"heterogeneous":[39],"metadata":[40],"has":[41],"potential":[43],"to":[44,59,75,125,140],"revolutionize":[45],"research.":[47],"This":[48],"study":[49],"proposes":[50],"a":[51,56,91,121],"novel":[52],"data-integration":[53],"model":[54,100,115],"practical":[57],"pipeline":[58],"explore":[60],"community":[62],"functions":[63],"integration":[66],"data.":[69,131],"Three":[70],"case":[71],"studies":[72],"were":[73],"employed":[74],"highlight":[76],"advanced":[78],"abilities":[79],"applications":[81],"our":[83,99],"graph":[84],"database":[85],"model.":[86],"Furthermore,":[87],"we":[88],"show":[89,133],"that":[90,112,134],"variety":[92],"information":[94],"can":[95,138],"be":[96],"queried":[97],"against":[98],"easily":[102],"extracted":[103],"using":[104],"proposed":[106,114],"analysis":[107],"pipeline.":[108],"Our":[109],"findings":[110],"suggest":[111],"is":[116],"highly":[117],"queryable":[118],"provides":[120],"critical":[122],"analytical":[123],"platform":[124],"extract":[126],"useful":[127],"knowledge":[128,136],"from":[129],"multi-omics":[130],"We":[132],"such":[135],"extraction":[137],"lead":[139],"discoveries,":[142],"particularly":[143],"when":[144],"utilizing":[145],"all":[146],"available":[147],"datasets.":[148]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2024,"cited_by_count":1}],"updated_date":"2026-03-26T15:22:09.906841","created_date":"2025-10-10T00:00:00"}