{"id":"https://openalex.org/W3198651272","doi":"https://doi.org/10.7490/f1000research.1118710.1","title":"Predictive modelling using genome-wide DNA methylation data","display_name":"Predictive modelling using genome-wide DNA methylation data","publication_year":2021,"publication_date":"2021-08-03","ids":{"openalex":"https://openalex.org/W3198651272","doi":"https://doi.org/10.7490/f1000research.1118710.1","mag":"3198651272"},"language":"en","primary_location":{"id":"doi:10.7490/f1000research.1118710.1","doi":"https://doi.org/10.7490/f1000research.1118710.1","is_oa":true,"landing_page_url":"https://doi.org/10.7490/f1000research.1118710.1","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"},"volume":null,"type":"other","indexed_in":["crossref","datacite"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.7490/f1000research.1118710.1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5102326193","display_name":"Lanyu Zhang","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Lanyu Zhang","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049599174","display_name":"Gabriel Odom","orcid":"https://orcid.org/0000-0003-1341-4555","observed_orcids":["https://orcid.org/0000-0003-1341-4555"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Gabriel Odom","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030586441","display_name":"Lizhong Liu","orcid":"https://orcid.org/0000-0003-2244-289X","observed_orcids":["https://orcid.org/0000-0003-2244-289X"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Lizhong Liu","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079804568","display_name":"Tiago C. Silva","orcid":"https://orcid.org/0000-0003-1343-6850","observed_orcids":["https://orcid.org/0000-0003-1343-6850"]},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Tiago C Silva","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5101537858","display_name":"Lily Wang","orcid":"https://orcid.org/0000-0002-6630-8767","observed_orcids":["https://orcid.org/0000-0002-6630-8767"]},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Lily Wang","raw_affiliation_strings":["University of Miami Miller School of Medicine, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Miami Miller School of Medicine, USA","institution_ids":["https://openalex.org/I145608581"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5101537858"],"corresponding_institution_ids":["https://openalex.org/I145608581"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"10","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9961000084877014,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9961000084877014,"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":0.000699999975040555,"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/T10885","display_name":"Gene expression and cancer classification","score":0.0006000000284984708,"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/dna-methylation","display_name":"DNA methylation","score":0.9819999933242798},{"id":"https://openalex.org/keywords/differentially-methylated-regions","display_name":"differentially methylated regions","score":0.9120000004768372},{"id":"https://openalex.org/keywords/elastic-net","display_name":"elastic net","score":0.5519999861717224},{"id":"https://openalex.org/keywords/predictive-modeling","display_name":"predictive modeling","score":0.7910000085830688},{"id":"https://openalex.org/keywords/alzheimer-s-disease","display_name":"Alzheimer's disease","score":0.8939999938011169},{"id":"https://openalex.org/keywords/methylation-markers","display_name":"methylation biomarkers","score":0.8009999990463257},{"id":"https://openalex.org/keywords/complex-diseases","display_name":"complex diseases","score":0.41100001335144043}],"concepts":[{"id":"https://openalex.org/C2983643791","wikidata":"https://www.wikidata.org/wiki/Q1999993","display_name":"Open peer review","level":3,"score":0.7736623287200928},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.7486969232559204},{"id":"https://openalex.org/C2992936677","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Plant biology","level":2,"score":0.6373802423477173},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5821022987365723},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5754190683364868},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5283057689666748},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.444853276014328},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.36009079217910767},{"id":"https://openalex.org/C42407357","wikidata":"https://www.wikidata.org/wiki/Q521","display_name":"Physiology","level":1,"score":0.35110071301460266},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.32127490639686584},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20420348644256592},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.13713034987449646},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.061250269412994385}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.7490/f1000research.1118710.1","doi":"https://doi.org/10.7490/f1000research.1118710.1","is_oa":true,"landing_page_url":"https://doi.org/10.7490/f1000research.1118710.1","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"},{"id":"doi:10.7490/f1000research.1118710.1","doi":"https://doi.org/10.7490/f1000research.1118710.1","is_oa":true,"landing_page_url":"https://doi.org/10.7490/f1000research.1118710.1","pdf_url":null,"source":{"id":"https://openalex.org/S7407050752","display_name":"Faculty of 1000 Research Ltd","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Other"},{"id":"mag:3198651272","doi":null,"is_oa":true,"landing_page_url":"https://f1000research.com/posters/10-742","pdf_url":null,"source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-scientific","cwts-core","doaj","jufo-1","ki-jl-1","medline","norway-1","oarl","poland-70","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357","https://openalex.org/P4310320547"],"host_organization_lineage_names":["Faculty of 1000","Taylor & Francis"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":"F1000Research","raw_type":null}],"best_oa_location":{"id":"doi:10.7490/f1000research.1118710.1","doi":"https://doi.org/10.7490/f1000research.1118710.1","is_oa":true,"landing_page_url":"https://doi.org/10.7490/f1000research.1118710.1","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":null,"raw_type":"posted-content"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.8048999905586243}],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2102433947","https://openalex.org/W2889940024","https://openalex.org/W3027055147","https://openalex.org/W4400044226","https://openalex.org/W2133022309","https://openalex.org/W2131971406","https://openalex.org/W2120391402","https://openalex.org/W4400313717","https://openalex.org/W6894199313","https://openalex.org/W7100095946"],"abstract_inverted_index":{"In":[0],"search":[1],"of":[2,33,50,60],"predicative":[3],"methylation":[4,31,88],"signatures":[5],"for":[6,99,118],"complex":[7],"diseases,":[8],"recent":[9],"studies":[10,19],"have":[11,20],"identified":[12],"valuable":[13],"DNA":[14,87],"methylation-based":[15],"biomarkers.":[16],"Most":[17],"previous":[18],"built":[21],"prediction":[22,63,97],"models":[23,64,103,107,120,140,147],"based":[24,71],"on":[25,72],"single":[26,40],"CpGs,":[27,41,145],"without":[28],"considering":[29],"the":[30,55,58,96,110,123,132,144,146,150],"status":[32],"neighboring":[34],"CpG":[35,126],"sites.":[36],"However,":[37],"compared":[38],"to":[39,127],"differentially":[42],"methylated":[43],"regions":[44,74],"give":[45],"higher":[46],"confidence":[47],"and":[48,81],"likelihood":[49],"biological":[51],"importance.":[52],"We":[53,76],"tested":[54],"hypothesis":[56],"that":[57,121,141,148],"accuracy":[59],"Elastic":[61,101],"Net":[62,102],"can":[65],"be":[66],"improved":[67],"by":[68],"using":[69,84,108,159],"predictors":[70],"co-methylated":[73],"(clusters).":[75],"performed":[77,104,131,137,154],"both":[78],"internal":[79],"cross-validation":[80],"external":[82],"validation":[83],"two":[85],"large":[86],"datasets":[89],"in":[90],"Alzheimer\u2019s":[91],"disease.":[92],"Our":[93],"results":[94],"showed":[95],"performance":[98],"cluster-based":[100],"similarly":[105],"as":[106,112],"only":[109,143],"CpGs":[111,153],"predictors.":[113],"Among":[114],"different":[115],"summarization":[116],"methods":[117,136],"clusters,":[119],"used":[122,142,149],"most":[124,151,160],"significant":[125,152],"represent":[128],"each":[129],"cluster":[130],"worst.":[133],"Other":[134],"summary":[135],"similarly.":[138],"For":[139],"uniformed":[155],"better":[156],"than":[157],"those":[158],"variable":[161],"CpGs.":[162]},"counts_by_year":[],"updated_date":"2026-10-28T10:33:24.094632","created_date":"2021-09-13T00:00:00"}