{"id":"https://openalex.org/W2972657130","doi":"https://doi.org/10.1145/3307339.3343476","title":"An Integrated Approach for Efficient Multi-Omics Joint Analysis","display_name":"An Integrated Approach for Efficient Multi-Omics Joint Analysis","publication_year":2019,"publication_date":"2019-09-04","ids":{"openalex":"https://openalex.org/W2972657130","doi":"https://doi.org/10.1145/3307339.3343476","mag":"2972657130","pmid":"https://pubmed.ncbi.nlm.nih.gov/31588431"},"language":"en","primary_location":{"id":"doi:10.1145/3307339.3343476","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3307339.3343476","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6777575","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5048528826","display_name":"Massimiliano S. Tagliamonte","orcid":"https://orcid.org/0000-0003-2699-7331"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Massimiliano S. Tagliamonte","raw_affiliation_strings":["University of Florida, Gainesville, FL, USA"],"affiliations":[{"raw_affiliation_string":"University of Florida, Gainesville, FL, USA","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052336139","display_name":"Sheldon Waugh","orcid":"https://orcid.org/0000-0003-3864-7726"},"institutions":[{"id":"https://openalex.org/I4210115724","display_name":"U.S. Army Center for Health Promotion and Preventive Medicine","ror":"https://ror.org/021bcyf85","country_code":"US","type":"government","lineage":["https://openalex.org/I106965489","https://openalex.org/I1304082316","https://openalex.org/I1330347796","https://openalex.org/I4210115724"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sheldon G. Waugh","raw_affiliation_strings":["Army Public Health Center, Aberdeen, MD, USA"],"affiliations":[{"raw_affiliation_string":"Army Public Health Center, Aberdeen, MD, USA","institution_ids":["https://openalex.org/I4210115724"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039419132","display_name":"Mattia Prosperi","orcid":"https://orcid.org/0000-0002-9021-5595"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mattia Prosperi","raw_affiliation_strings":["University of Florida, Gainesville, FL, USA"],"affiliations":[{"raw_affiliation_string":"University of Florida, Gainesville, FL, USA","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048359764","display_name":"Volker Mai","orcid":"https://orcid.org/0000-0002-6997-9750"},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Volker Mai","raw_affiliation_strings":["University of Florida, Gainesville, FL, USA"],"affiliations":[{"raw_affiliation_string":"University of Florida, Gainesville, FL, USA","institution_ids":["https://openalex.org/I33213144"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5048528826"],"corresponding_institution_ids":["https://openalex.org/I33213144"],"apc_list":null,"apc_paid":null,"fwci":0.1705,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.52377667,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":93,"max":95},"biblio":{"volume":"2019","issue":null,"first_page":"619","last_page":"625"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9965999722480774,"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":0.9965999722480774,"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/T10066","display_name":"Gut microbiota and health","score":0.9714999794960022,"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9616000056266785,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/pairwise-comparison","display_name":"Pairwise comparison","score":0.5785611867904663},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5059575438499451},{"id":"https://openalex.org/keywords/normalization","display_name":"Normalization (sociology)","score":0.4949795603752136},{"id":"https://openalex.org/keywords/microbiome","display_name":"Microbiome","score":0.48879215121269226},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4617912769317627},{"id":"https://openalex.org/keywords/canonical-correlation","display_name":"Canonical correlation","score":0.44819796085357666},{"id":"https://openalex.org/keywords/dimensionality-reduction","display_name":"Dimensionality reduction","score":0.4396923780441284},{"id":"https://openalex.org/keywords/sample-size-determination","display_name":"Sample size determination","score":0.4295506477355957},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.36165863275527954},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3570554852485657},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.35102057456970215},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.3310486078262329},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.27931851148605347},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1850649118423462}],"concepts":[{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.5785611867904663},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5059575438499451},{"id":"https://openalex.org/C136886441","wikidata":"https://www.wikidata.org/wiki/Q926129","display_name":"Normalization (sociology)","level":2,"score":0.4949795603752136},{"id":"https://openalex.org/C143121216","wikidata":"https://www.wikidata.org/wiki/Q1330402","display_name":"Microbiome","level":2,"score":0.48879215121269226},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4617912769317627},{"id":"https://openalex.org/C153874254","wikidata":"https://www.wikidata.org/wiki/Q115542","display_name":"Canonical correlation","level":2,"score":0.44819796085357666},{"id":"https://openalex.org/C70518039","wikidata":"https://www.wikidata.org/wiki/Q16000077","display_name":"Dimensionality reduction","level":2,"score":0.4396923780441284},{"id":"https://openalex.org/C129848803","wikidata":"https://www.wikidata.org/wiki/Q2564360","display_name":"Sample size determination","level":2,"score":0.4295506477355957},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.36165863275527954},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3570554852485657},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.35102057456970215},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.3310486078262329},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.27931851148605347},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1850649118423462},{"id":"https://openalex.org/C19165224","wikidata":"https://www.wikidata.org/wiki/Q23404","display_name":"Anthropology","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1145/3307339.3343476","is_oa":false,"landing_page_url":"https://doi.org/10.1145/3307339.3343476","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics","raw_type":"proceedings-article"},{"id":"pmid:31588431","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31588431","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":"ACM-BCB ... ... : the ... ACM Conference on Bioinformatics, Computational Biology and Biomedicine. ACM Conference on Bioinformatics, Computational Biology and Biomedicine","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:6777575","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6777575","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":"ACM BCB","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:6777575","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6777575","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":"ACM BCB","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3520510784","display_name":null,"funder_award_id":"R21CA195251-01A1","funder_id":"https://openalex.org/F4320310702","funder_display_name":"National Cancer Research Institute"},{"id":"https://openalex.org/G4636870354","display_name":null,"funder_award_id":"1R01AI141810-01","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"}],"funders":[{"id":"https://openalex.org/F4320310702","display_name":"National Cancer Research Institute","ror":"https://ror.org/02mp0vf47"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":32,"referenced_works":["https://openalex.org/W1126080938","https://openalex.org/W1519835538","https://openalex.org/W1961273592","https://openalex.org/W1966788611","https://openalex.org/W1978709058","https://openalex.org/W1996173530","https://openalex.org/W1996609261","https://openalex.org/W2006292369","https://openalex.org/W2006617902","https://openalex.org/W2015567271","https://openalex.org/W2062157539","https://openalex.org/W2072970694","https://openalex.org/W2089643849","https://openalex.org/W2101250437","https://openalex.org/W2101870168","https://openalex.org/W2105084426","https://openalex.org/W2107665951","https://openalex.org/W2118530133","https://openalex.org/W2119883345","https://openalex.org/W2140683554","https://openalex.org/W2159482845","https://openalex.org/W2159675211","https://openalex.org/W2169353806","https://openalex.org/W2261451134","https://openalex.org/W2262330054","https://openalex.org/W2316330285","https://openalex.org/W2338146147","https://openalex.org/W2559588208","https://openalex.org/W2564393024","https://openalex.org/W2770639073","https://openalex.org/W2897805491","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2487162673","https://openalex.org/W1565185441","https://openalex.org/W2793211469","https://openalex.org/W2949152769","https://openalex.org/W4372354731","https://openalex.org/W2942366970","https://openalex.org/W2807634898","https://openalex.org/W1968846550","https://openalex.org/W1692008701","https://openalex.org/W2597588799"],"abstract_inverted_index":{"The":[0,155],"challenges":[1],"associated":[2],"with":[3,51,88,219],"multi-omics":[4],"analysis,":[5,72,233],"e.g.":[6],"DNA-seq,":[7],"RNA-seq,":[8],"metabolomics,":[9],"methylomics":[10,83],"and":[11,43,58,62,84,121,128,193],"microbiomics":[12,86],"domains,":[13],"include:":[14],"(1)":[15],"increased":[16,33],"high-dimensionality,":[17],"as":[18,92],"all":[19,159],"-omics":[20],"domains":[21],"include":[22],"ten":[23],"thousands":[24,28],"to":[25,75,149,173,212,215,235,258],"hundreds":[26],"of":[27,29,78,225,276],"variables":[30,133,177],"each;":[31],"(2)":[32],"complexity":[34],"in":[35,55,166,230,239],"analyzing":[36],"domain-domain":[37],"interactions,":[38],"quadratic":[39,165],"for":[40,45,60,70,104,117,198,272],"pairwise":[41],"correlation,":[42],"exponential":[44],"higher-order":[46],"interactions;":[47],"(3)":[48],"variable":[49,115],"heterogeneity,":[50],"highly":[52],"skewed":[53],"distributions":[54],"different":[56],"units":[57],"scales":[59],"methylation":[61,120],"microbiome.":[63],"Here,":[64],"we":[65,99,113,143,170,249],"developed":[66],"an":[67,76],"efficient":[68],"strategy":[69],"joint-domain":[71,146],"applying":[73],"it":[74],"analysis":[77,148,157,183],"correlations":[79],"between":[80],"colon":[81],"epithelium":[82],"fecal":[85],"data":[87,123],"colorectal":[89,95],"cancer":[90],"risk":[91],"estimated":[93],"by":[94,178,255],"polyp":[96,187,277],"prevalence.":[97,188],"First,":[98],"applied":[100],"domain-specific":[101,126],"standard":[102],"pipelines":[103],"quality":[105],"assessment,":[106],"cleaning,":[107],"batch-effect":[108],"removal,":[109],"et":[110],"cetera.":[111],"Second,":[112],"performed":[114],"homogenization":[116],"both":[118],"the":[119,139,175,185,202,231,240,251,259,265,273],"microbiome":[122],"sets,":[124],"using":[125],"normalization":[127],"dimension":[129],"reduction,":[130],"obtaining":[131],"scale-free":[132],"that":[134,264],"could":[135],"be":[136],"compared":[137],"across":[138],"two":[140],"domains.":[141],"Finally,":[142],"implemented":[144],"a":[145,180,223,237,246],"network":[147,156,252],"identify":[150],"relevant":[151],"microbial-methylation":[152],"island":[153],"patterns.":[154],"considered":[158],"possible":[160],"species-island":[161],"pairs,":[162],"thus":[163],"being":[164],"its":[167],"complexity.":[168],"However,":[169],"were":[171,196,243],"able":[172],"pre-select":[174],"unpaired":[176],"performing":[179],"preliminary":[181],"association":[182,192,228],"on":[184],"outcome":[186],"All":[189],"results":[190],"from":[191],"interaction":[194],"analyses":[195],"adjusted":[197],"multiple":[199],"comparisons.":[200],"Although":[201],"limited":[203],"sample":[204],"size":[205],"did":[206],"not":[207],"provide":[208],"good":[209],"power":[210],"(80%":[211],"detect":[213],"medium":[214],"large":[216],"effect":[217],"sizes":[218],"5%":[220],"alpha":[221],"error),":[222],"number":[224],"potentially":[226],"significant":[227],"(dozens":[229],"uncorrected":[232],"reducing":[234],"just":[236],"few":[238],"corrected":[241],"one)":[242],"identified":[244,254],"As":[245],"last":[247],"step,":[248],"linked":[250],"patterns":[253],"our":[256],"approach":[257],"KEGG":[260],"functional":[261],"ontology,":[262],"showing":[263],"method":[266],"can":[267],"generate":[268],"new":[269],"mechanistic":[270],"hypotheses":[271],"biological":[274],"causes":[275],"development.":[278]},"counts_by_year":[{"year":2021,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}