{"id":"https://openalex.org/W2004478563","doi":"https://doi.org/10.1002/sim.2379","title":"Getting more from digital SNP data","display_name":"Getting more from digital SNP data","publication_year":2006,"publication_date":"2006-01-05","ids":{"openalex":"https://openalex.org/W2004478563","doi":"https://doi.org/10.1002/sim.2379","mag":"2004478563","pmid":"https://pubmed.ncbi.nlm.nih.gov/16397858"},"language":"en","primary_location":{"id":"doi:10.1002/sim.2379","doi":"https://doi.org/10.1002/sim.2379","is_oa":false,"landing_page_url":"https://doi.org/10.1002/sim.2379","pdf_url":null,"source":{"id":"https://openalex.org/S55189604","display_name":"Statistics in Medicine","issn_l":"0277-6715","issn":["0277-6715","1097-0258"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["abdc-a","anvur-class-a","anvur-scientific","cwts-core","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Statistics in Medicine","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","pubmed"],"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/A5073887573","display_name":"Noureddine El Karoui","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210137306","display_name":"Stanford Medicine","ror":"https://ror.org/03mtd9a03","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210137306","https://openalex.org/I97018004"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Noureddine El Karoui","raw_affiliation_strings":["Department of Health Research and Policy, Stanford University School of Medicine, Stanford, CA 94305, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Health Research and Policy, Stanford University School of Medicine, Stanford, CA 94305, USA","institution_ids":["https://openalex.org/I4210137306","https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069603616","display_name":"Wei Zhou","orcid":"https://orcid.org/0000-0002-6783-9957","observed_orcids":["https://orcid.org/0000-0002-6783-9957"]},"institutions":[{"id":"https://openalex.org/I150468666","display_name":"Emory University","ror":"https://ror.org/03czfpz43","country_code":"US","type":"education","lineage":["https://openalex.org/I150468666"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wei Zhou","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine, Emory University School of Medicine, Atlanta, GA 30322, U.S.A"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine, Emory University School of Medicine, Atlanta, GA 30322, U.S.A","institution_ids":["https://openalex.org/I150468666"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5037849512","display_name":"Alice S. Whittemore","orcid":"https://orcid.org/0000-0003-1985-9926","observed_orcids":["https://orcid.org/0000-0003-1985-9926"]},"institutions":[{"id":"https://openalex.org/I4210137306","display_name":"Stanford Medicine","ror":"https://ror.org/03mtd9a03","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210137306","https://openalex.org/I97018004"]},{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Alice S. Whittemore","raw_affiliation_strings":["Department of Health Research and Policy, Stanford University School of Medicine, Stanford, CA 94305, U.S.A","Stanford University School of Medicine, Department of Health Research and Policy, HRP Redwood Building, Room T204, Stanford, CA 94305\u20105405, U.S.A"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Health Research and Policy, Stanford University School of Medicine, Stanford, CA 94305, U.S.A","institution_ids":["https://openalex.org/I4210137306","https://openalex.org/I97018004"]},{"raw_affiliation_string":"Stanford University School of Medicine, Department of Health Research and Policy, HRP Redwood Building, Room T204, Stanford, CA 94305\u20105405, U.S.A","institution_ids":["https://openalex.org/I4210137306","https://openalex.org/I97018004"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5037849512"],"corresponding_institution_ids":["https://openalex.org/I4210137306","https://openalex.org/I97018004"],"apc_list":{"value":5450,"currency":"USD","value_usd":5450},"apc_paid":null,"fwci":0.2545,"has_fulltext":false,"cited_by_count":11,"citation_normalized_percentile":{"value":0.5741573,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":94},"biblio":{"volume":"25","issue":"18","first_page":"3124","last_page":"3133"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.7695000171661377,"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.7695000171661377,"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/T10885","display_name":"Gene expression and cancer classification","score":0.11490000039339066,"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":0.019999999552965164,"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/loss-of-heterozygosity","display_name":"loss of heterozygosity","score":0.9890000224113464},{"id":"https://openalex.org/keywords/tumor-classification","display_name":"tumor classification","score":0.7730000019073486},{"id":"https://openalex.org/keywords/sequential-probability-ratio-test","display_name":"sequential probability ratio test","score":0.9390000104904175},{"id":"https://openalex.org/keywords/false-discovery-rate","display_name":"false discovery rate","score":0.9919999837875366},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphisms","display_name":"single nucleotide polymorphisms","score":0.5680000185966492},{"id":"https://openalex.org/keywords/cancer-genomics","display_name":"cancer genomics","score":0.42399999499320984}],"concepts":[{"id":"https://openalex.org/C139275648","wikidata":"https://www.wikidata.org/wiki/Q17134011","display_name":"SNP","level":5,"score":0.8361705541610718},{"id":"https://openalex.org/C143589142","wikidata":"https://www.wikidata.org/wiki/Q2617554","display_name":"Loss of heterozygosity","level":4,"score":0.677146315574646},{"id":"https://openalex.org/C34602496","wikidata":"https://www.wikidata.org/wiki/Q2271882","display_name":"Sequential probability ratio test","level":2,"score":0.6215310096740723},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4981231689453125},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.47657275199890137},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3630691170692444},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.28246402740478516},{"id":"https://openalex.org/C180754005","wikidata":"https://www.wikidata.org/wiki/Q80726","display_name":"Allele","level":3,"score":0.26310211420059204},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2317211925983429},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.20644375681877136},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.1397072672843933},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0703262984752655}],"mesh":[{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004273","descriptor_name":"DNA, Neoplasm","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008297","descriptor_name":"Male","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011471","descriptor_name":"Prostatic Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D022981","descriptor_name":"Allelic Imbalance","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1002/sim.2379","doi":"https://doi.org/10.1002/sim.2379","is_oa":false,"landing_page_url":"https://doi.org/10.1002/sim.2379","pdf_url":null,"source":{"id":"https://openalex.org/S55189604","display_name":"Statistics in Medicine","issn_l":"0277-6715","issn":["0277-6715","1097-0258"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["abdc-a","anvur-class-a","anvur-scientific","cwts-core","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Statistics in Medicine","raw_type":"journal-article"},{"id":"pmid:16397858","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/16397858","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,"listed_in":[],"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":"Statistics in medicine","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.5683000087738037,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"study_designs":[],"awards":[{"id":"https://openalex.org/G1635703979","display_name":"Statistical Methods for Genetic Epidemiology","funder_award_id":"R01CA094069","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320306352","display_name":"Georgia Cancer Coalition","ror":"https://ror.org/0009gvn90"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W1539282978","https://openalex.org/W1575714113","https://openalex.org/W1978108315","https://openalex.org/W2053625264","https://openalex.org/W2059566143","https://openalex.org/W2063778333","https://openalex.org/W2098475463","https://openalex.org/W2104241530","https://openalex.org/W2105436057","https://openalex.org/W2110065044","https://openalex.org/W2123444907","https://openalex.org/W2145548425","https://openalex.org/W2331508039","https://openalex.org/W2579829632","https://openalex.org/W3217689874","https://openalex.org/W4256232412"],"related_works":["https://openalex.org/W3146501821","https://openalex.org/W7100997850","https://openalex.org/W2104241530","https://openalex.org/W7096226606","https://openalex.org/W2120793026","https://openalex.org/W7096490023","https://openalex.org/W1758349423","https://openalex.org/W7096846736","https://openalex.org/W2122410503","https://openalex.org/W2058449327"],"abstract_inverted_index":{"The":[0,23,44,98],"digital":[1,73,79,108],"SNP":[2,74,80,109,142],"method":[3,24],"has":[4,84],"been":[5],"proposed":[6],"for":[7,36,56,71,114],"identifying":[8],"loss":[9,92],"of":[10,93,107],"heterozygosity":[11],"(LOH)":[12],"in":[13,90],"tumour":[14,51,96],"tissue":[15,41],"and":[16,95,111,131],"correlating":[17],"it":[18,134],"with":[19],"patients'":[20],"clinical":[21],"characteristics.":[22],"evaluates":[25],"a":[26,31],"tumour's":[27],"allelic":[28],"count":[29,45],"at":[30],"single":[32],"nucleotide":[33],"polymorphism":[34],"(SNP)":[35],"which":[37,115],"the":[38,50,59,66,82,105,112,127,136],"patient's":[39],"normal":[40],"is":[42,46],"heterozygous.":[43],"used":[47],"to":[48,78,140],"classify":[49],"as":[52],"positive":[53],"or":[54],"negative":[55],"LOH,":[57],"using":[58],"sequential":[60],"probability":[61],"ratio":[62],"test":[63],"(SPRT).":[64],"However,":[65],"SPRT":[67,83,116,137],"was":[68,117],"not":[69],"developed":[70],"analysing":[72],"experiments.":[75],"When":[76],"applied":[77,139],"data,":[81],"several":[85],"anomalies":[86,99],"that":[87,133],"can":[88],"result":[89],"both":[91],"data":[94],"misclassification.":[97],"are":[100],"caused":[101],"by":[102],"discrepancies":[103],"between":[104],"design":[106],"experiments":[110],"setting":[113],"developed.":[118],"We":[119],"propose":[120],"an":[121],"alternative":[122],"classification":[123],"scheme":[124],"based":[125],"on":[126],"false":[128],"discovery":[129],"rate,":[130],"show":[132],"outperforms":[135],"when":[138],"Digital":[141],"data.":[143]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-11-06T12:05:46.655746","created_date":"2016-06-24T00:00:00"}
