{"id":"https://openalex.org/W2106077937","doi":"https://doi.org/10.1093/bioinformatics/btq399","title":"PERMORY: an LD-exploiting permutation test algorithm for powerful genome-wide association testing","display_name":"PERMORY: an LD-exploiting permutation test algorithm for powerful genome-wide association testing","publication_year":2010,"publication_date":"2010-07-06","ids":{"openalex":"https://openalex.org/W2106077937","doi":"https://doi.org/10.1093/bioinformatics/btq399","mag":"2106077937","pmid":"https://pubmed.ncbi.nlm.nih.gov/20605926"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btq399","doi":"https://doi.org/10.1093/bioinformatics/btq399","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq399","pdf_url":null,"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,"listed_in":["abdc-a","anvur-class-a","anvur-scientific","ccf-a","cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"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"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","doaj","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/A5074836970","display_name":"Roman Pahl","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I161103922","display_name":"Philipps University of Marburg","ror":"https://ror.org/01rdrb571","country_code":"DE","type":"education","lineage":["https://openalex.org/I161103922"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Roman Pahl","raw_affiliation_strings":["Institut f\u00fcr Medizinische Biometrie und Epidemiologie, Philipps-Universit\u00e4t Marburg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut f\u00fcr Medizinische Biometrie und Epidemiologie, Philipps-Universit\u00e4t Marburg, Germany","institution_ids":["https://openalex.org/I161103922"]}]},{"author_position":"last","author":{"id":null,"display_name":"Helmut Sch\u00e4fer","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I161103922","display_name":"Philipps University of Marburg","ror":"https://ror.org/01rdrb571","country_code":"DE","type":"education","lineage":["https://openalex.org/I161103922"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Helmut Sch\u00e4fer","raw_affiliation_strings":["Institut f\u00fcr Medizinische Biometrie und Epidemiologie, Philipps-Universit\u00e4t Marburg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut f\u00fcr Medizinische Biometrie und Epidemiologie, Philipps-Universit\u00e4t Marburg, Germany","institution_ids":["https://openalex.org/I161103922"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I161103922"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":null,"fwci":1.5286,"has_fulltext":false,"cited_by_count":49,"citation_normalized_percentile":{"value":0.83006687,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":99},"biblio":{"volume":"26","issue":"17","first_page":"2093","last_page":"2100"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9526000022888184,"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"}},"topics":[{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9526000022888184,"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/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.030500000342726707,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0027000000700354576,"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/permutation-tests","display_name":"permutation tests","score":0.8989999890327454},{"id":"https://openalex.org/keywords/genome-wide-association-study","display_name":"genome-wide association study","score":0.8930000066757202},{"id":"https://openalex.org/keywords/multiple-testing-correction","display_name":"multiple testing correction","score":0.9739999771118164},{"id":"https://openalex.org/keywords/false-positive-control","display_name":"false positive control","score":0.6019999980926514},{"id":"https://openalex.org/keywords/computational-efficiency","display_name":"computational efficiency","score":0.6389999985694885},{"id":"https://openalex.org/keywords/type-i-error-control","display_name":"type I error control","score":0.7720000147819519},{"id":"https://openalex.org/keywords/statistical-power","display_name":"statistical power","score":0.8069999814033508}],"concepts":[{"id":"https://openalex.org/C21308566","wikidata":"https://www.wikidata.org/wiki/Q7169365","display_name":"Permutation (music)","level":2,"score":0.7853506803512573},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.644794762134552},{"id":"https://openalex.org/C106208931","wikidata":"https://www.wikidata.org/wiki/Q1098876","display_name":"Genome-wide association study","level":5,"score":0.5759665369987488},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5019948482513428},{"id":"https://openalex.org/C183905921","wikidata":"https://www.wikidata.org/wiki/Q1038757","display_name":"Multiple comparisons problem","level":2,"score":0.4329165816307068},{"id":"https://openalex.org/C87007009","wikidata":"https://www.wikidata.org/wiki/Q210832","display_name":"Statistical hypothesis testing","level":2,"score":0.4305707514286041},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.32477766275405884},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2210139036178589},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.17235949635505676},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.11928072571754456},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10798633098602295},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.08507674932479858},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005819","descriptor_name":"Genetic Markers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btq399","doi":"https://doi.org/10.1093/bioinformatics/btq399","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq399","pdf_url":null,"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,"listed_in":["abdc-a","anvur-class-a","anvur-scientific","ccf-a","cwts-core","doaj","dongbi-b","doyens","jufo-3","ki-jl-2","medline","norway-2","oarl","poland-200","russia-white-list-1","vabb-shw"],"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":"pmid:20605926","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20605926","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":"Bioinformatics (Oxford, England)","raw_type":"Journal Article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.1012.4779","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.1012.4779","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://bioinformatics.oxfordjournals.org/content/early/2010/07/06/bioinformatics.btq399.full.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.1015.3408","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.1015.3408","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://bioinformatics.oxfordjournals.org/content/26/17/2093.full.pdf","raw_type":"text"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":26,"referenced_works":["https://openalex.org/W1493051321","https://openalex.org/W1978124765","https://openalex.org/W1978153736","https://openalex.org/W1982516880","https://openalex.org/W1992436001","https://openalex.org/W2011550781","https://openalex.org/W2018617521","https://openalex.org/W2030705868","https://openalex.org/W2054881132","https://openalex.org/W2061750459","https://openalex.org/W2066874799","https://openalex.org/W2070345960","https://openalex.org/W2075844835","https://openalex.org/W2086286256","https://openalex.org/W2098762353","https://openalex.org/W2105239414","https://openalex.org/W2105673666","https://openalex.org/W2107755054","https://openalex.org/W2119279196","https://openalex.org/W2134783591","https://openalex.org/W2153902319","https://openalex.org/W2155177033","https://openalex.org/W2161633633","https://openalex.org/W2163184920","https://openalex.org/W2166774283","https://openalex.org/W2169632325"],"related_works":["https://openalex.org/W7097677233","https://openalex.org/W2122694530","https://openalex.org/W2070345960","https://openalex.org/W2170530593","https://openalex.org/W4389128418","https://openalex.org/W4402630653","https://openalex.org/W4403924852","https://openalex.org/W2027670229","https://openalex.org/W4296480564","https://openalex.org/W2153902319"],"abstract_inverted_index":{"MOTIVATION:":[0],"In":[1,68],"genome-wide":[2,125],"association":[3],"studies":[4],"(GWAS)":[5],"examining":[6],"hundreds":[7],"of":[8,10,17,65,96,112,135,151],"thousands":[9],"genetic":[11],"markers,":[12],"the":[13,31,53,71,92,168],"potentially":[14],"high":[15,50],"number":[16],"false":[18],"positive":[19],"findings":[20],"requires":[21],"statistical":[22],"correction":[23,37],"for":[24,34],"multiple":[25,35],"testing.":[26],"Permutation":[27],"tests":[28],"are":[29],"considered":[30],"gold":[32],"standard":[33,145],"testing":[36,98,122],"in":[38,99],"GWAS,":[39],"because":[40],"they":[41,56],"simultaneously":[42],"provide":[43],"unbiased":[44,140],"type":[45],"I":[46],"error":[47],"control":[48],"and":[49,101,137],"power.":[51],"At":[52],"same":[54],"time,":[55],"demand":[57],"heavy":[58],"computational":[59,72,94],"effort,":[60],"especially":[61],"with":[62],"large-scale":[63],"datasets":[64],"modern":[66],"GWAS.":[67],"recent":[69],"years,":[70],"problem":[73,95],"has":[74],"been":[75],"circumvented":[76],"by":[77],"using":[78],"approximations":[79],"to":[80,143],"permutation":[81,97,105,121,146],"tests,":[82],"which,":[83],"however,":[84],"may":[85],"be":[86],"biased.":[87],"RESULTS:":[88],"We":[89],"have":[90],"tackled":[91],"original":[93],"GWAS":[100],"herein":[102],"present":[103],"a":[104,124,144,155],"test":[106],"algorithm":[107,128,153],"one":[108],"or":[109],"more":[110],"orders":[111],"magnitude":[113],"faster":[114],"than":[115],"existing":[116],"implementations,":[117],"which":[118],"enables":[119],"efficient":[120],"on":[123,132,167],"scale.":[126],"Our":[127],"does":[129],"not":[130],"rely":[131],"any":[133],"kind":[134],"approximation":[136],"hence":[138],"produces":[139],"results":[141],"identical":[142],"test.":[147],"A":[148],"noteworthy":[149],"feature":[150],"our":[152],"is":[154],"particularly":[156],"effective":[157],"performance":[158],"when":[159],"analyzing":[160],"high-density":[161],"marker":[162],"sets.":[163],"AVAILABILITY:":[164],"Freely":[165],"available":[166],"web":[169],"at":[170],"http://www.permory.org.":[171]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":8},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":4}],"updated_date":"2026-11-07T11:25:07.637180","created_date":"2016-06-24T00:00:00"}
