{"id":"https://openalex.org/W2155455720","doi":"https://doi.org/10.1186/1471-2105-9-s9-s17","title":"Assessing batch effects of genotype calling algorithm BRLMM for the Affymetrix GeneChip Human Mapping 500 K array set using 270 HapMap samples","display_name":"Assessing batch effects of genotype calling algorithm BRLMM for the Affymetrix GeneChip Human Mapping 500 K array set using 270 HapMap samples","publication_year":2008,"publication_date":"2008-08-12","ids":{"openalex":"https://openalex.org/W2155455720","doi":"https://doi.org/10.1186/1471-2105-9-s9-s17","mag":"2155455720","pmid":"https://pubmed.ncbi.nlm.nih.gov/18793462"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-9-s9-s17","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-s9-s17","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-S9-S17","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-S9-S17","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100742819","display_name":"Huixiao Hong","orcid":"https://orcid.org/0000-0001-8087-3968"},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Huixiao Hong","raw_affiliation_strings":["Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR 72079, USA. Huixiao.Hong@fda.hhs.gov","Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR 72079, USA. Huixiao.Hong@fda.hhs.gov","institution_ids":["https://openalex.org/I1304557061"]},{"raw_affiliation_string":"Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110507775","display_name":"Zhenqiang Su","orcid":null},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zhenqiang Su","raw_affiliation_strings":["Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109700398","display_name":"Weigong Ge","orcid":null},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Weigong Ge","raw_affiliation_strings":["Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102979537","display_name":"Leming Shi","orcid":"https://orcid.org/0000-0002-7143-2033"},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Leming Shi","raw_affiliation_strings":["Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048655816","display_name":"Roger Perkins","orcid":null},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I61822063","display_name":"ICF International (United States)","ror":"https://ror.org/0156f0c06","country_code":"US","type":"company","lineage":["https://openalex.org/I61822063"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Roger Perkins","raw_affiliation_strings":["Z-Tech Corp, an ICF International Company at National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Z-Tech Corp, an ICF International Company at National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070","https://openalex.org/I61822063"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103228349","display_name":"Hong Fang","orcid":"https://orcid.org/0000-0002-2330-1469"},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I61822063","display_name":"ICF International (United States)","ror":"https://ror.org/0156f0c06","country_code":"US","type":"company","lineage":["https://openalex.org/I61822063"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hong Fang","raw_affiliation_strings":["Z-Tech Corp, an ICF International Company at National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Z-Tech Corp, an ICF International Company at National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070","https://openalex.org/I61822063"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024782080","display_name":"Joshua Xu","orcid":"https://orcid.org/0000-0001-5313-5847"},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I61822063","display_name":"ICF International (United States)","ror":"https://ror.org/0156f0c06","country_code":"US","type":"company","lineage":["https://openalex.org/I61822063"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joshua Xu","raw_affiliation_strings":["Z-Tech Corp, an ICF International Company at National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Z-Tech Corp, an ICF International Company at National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070","https://openalex.org/I61822063"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051461953","display_name":"James J. Chen","orcid":"https://orcid.org/0000-0001-6967-6349"},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James J Chen","raw_affiliation_strings":["Division of Personalized Nutrition and Medicine, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Personalized Nutrition and Medicine, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001024551","display_name":"Tao Han","orcid":"https://orcid.org/0000-0003-3463-3319"},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tao Han","raw_affiliation_strings":["Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077112909","display_name":"Jim Kaput","orcid":"https://orcid.org/0000-0001-6147-3491"},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jim Kaput","raw_affiliation_strings":["Division of Personalized Nutrition and Medicine, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Personalized Nutrition and Medicine, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018882292","display_name":"James C. Fuscoe","orcid":null},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James C Fuscoe","raw_affiliation_strings":["Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068886380","display_name":"Weida Tong","orcid":"https://orcid.org/0000-0003-3488-6148"},"institutions":[{"id":"https://openalex.org/I1304557061","display_name":"National Center for Toxicological Research","ror":"https://ror.org/05jmhh281","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1304557061","https://openalex.org/I1320320070"]},{"id":"https://openalex.org/I1320320070","display_name":"United States Food and Drug Administration","ror":"https://ror.org/034xvzb47","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1320320070"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Weida Tong","raw_affiliation_strings":["Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of Systems Toxicology, National Center for Toxicological Research, US Food and Drug Administration, 3900 NCTR Road, Jefferson, AR, 72079, USA","institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5100742819"],"corresponding_institution_ids":["https://openalex.org/I1304557061","https://openalex.org/I1320320070"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":7.8701,"has_fulltext":true,"cited_by_count":90,"citation_normalized_percentile":{"value":0.97773009,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"9","issue":"S9","first_page":"S17","last_page":"S17"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9771000146865845,"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":0.9771000146865845,"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":0.004600000102072954,"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/T10751","display_name":"Forensic and Genetic Research","score":0.0017999999690800905,"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/international-hapmap-project","display_name":"International HapMap Project","score":0.8868613839149475},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.6837383508682251},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.6268637180328369},{"id":"https://openalex.org/keywords/genome-wide-association-study","display_name":"Genome-wide association study","score":0.6125351190567017},{"id":"https://openalex.org/keywords/genotyping","display_name":"Genotyping","score":0.6066179275512695},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5634114742279053},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4745895564556122},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.44876548647880554},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.17953968048095703}],"concepts":[{"id":"https://openalex.org/C177580304","wikidata":"https://www.wikidata.org/wiki/Q1147298","display_name":"International HapMap Project","level":5,"score":0.8868613839149475},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.6837383508682251},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.6268637180328369},{"id":"https://openalex.org/C106208931","wikidata":"https://www.wikidata.org/wiki/Q1098876","display_name":"Genome-wide association study","level":5,"score":0.6125351190567017},{"id":"https://openalex.org/C31467283","wikidata":"https://www.wikidata.org/wiki/Q912147","display_name":"Genotyping","level":4,"score":0.6066179275512695},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5634114742279053},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4745895564556122},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.44876548647880554},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.17953968048095703}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004252","descriptor_name":"DNA Mutational Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004252","descriptor_name":"DNA Mutational Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004252","descriptor_name":"DNA Mutational Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D005838","descriptor_name":"Genotype","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":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006239","descriptor_name":"Haplotypes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","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":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-9-s9-s17","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-s9-s17","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-S9-S17","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:18793462","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18793462","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:9520496b42724823aeb55a096d7ad2b3","is_oa":true,"landing_page_url":"https://doaj.org/article/9520496b42724823aeb55a096d7ad2b3","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 9, Iss Suppl 9, p S17 (2008)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2537568","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2537568","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-9-s9-s17","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-s9-s17","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-S9-S17","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6000000238418579,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320307770","display_name":"AstraZeneca","ror":"https://ror.org/04r9x1a08"},{"id":"https://openalex.org/F4320307773","display_name":"GlaxoSmithKline","ror":"https://ror.org/01xsqw823"},{"id":"https://openalex.org/F4320317673","display_name":"Translational Genomics Research Institute","ror":"https://ror.org/02hfpnk21"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2155455720.pdf","grobid_xml":"https://content.openalex.org/works/W2155455720.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W115862465","https://openalex.org/W1944558458","https://openalex.org/W1981714996","https://openalex.org/W1991443138","https://openalex.org/W1991460649","https://openalex.org/W1993507262","https://openalex.org/W1994664175","https://openalex.org/W2004091189","https://openalex.org/W2006423274","https://openalex.org/W2011197968","https://openalex.org/W2014077667","https://openalex.org/W2025143098","https://openalex.org/W2034093453","https://openalex.org/W2048755332","https://openalex.org/W2064340631","https://openalex.org/W2064588547","https://openalex.org/W2065218625","https://openalex.org/W2069491279","https://openalex.org/W2082122713","https://openalex.org/W2097660065","https://openalex.org/W2101510083","https://openalex.org/W2110065044","https://openalex.org/W2110888991","https://openalex.org/W2113784410","https://openalex.org/W2115521447","https://openalex.org/W2119279196","https://openalex.org/W2122031852","https://openalex.org/W2125255775","https://openalex.org/W2131889332","https://openalex.org/W2134783591","https://openalex.org/W2136899088","https://openalex.org/W2147298104","https://openalex.org/W2147696849","https://openalex.org/W2149585871","https://openalex.org/W2155829072","https://openalex.org/W2157043398","https://openalex.org/W2166966137","https://openalex.org/W2167850474","https://openalex.org/W2168272873","https://openalex.org/W2217809488"],"related_works":["https://openalex.org/W2377518790","https://openalex.org/W2394359576","https://openalex.org/W2463477745","https://openalex.org/W2349105149","https://openalex.org/W1978000554","https://openalex.org/W1993755972","https://openalex.org/W2500027009","https://openalex.org/W1989752273","https://openalex.org/W2947403120","https://openalex.org/W2027381516"],"abstract_inverted_index":{"BACKGROUND:":[0],"Genome-wide":[1],"association":[2,240,342],"studies":[3],"(GWAS)":[4],"aim":[5],"to":[6,49,286,332,353],"identify":[7],"genetic":[8],"variants":[9],"(usually":[10],"single":[11],"nucleotide":[12],"polymorphisms":[13],"[SNPs])":[14],"across":[15],"the":[16,84,94,109,125,140,143,160,169,183,200,222,228,232,296,306,311,313,318,321,323,326,333,369],"entire":[17,95],"human":[18],"genome":[19],"that":[20,243],"are":[21,39,66,79,86],"associated":[22,147,255,337],"with":[23,182,199,270,276],"phenotypic":[24],"traits":[25],"such":[26],"as":[27,137,139],"disease":[28],"status":[29],"and":[30,35,56,103,120,135,163,212,231,247,253,259,268,280,293,346],"drug":[31],"response.":[32],"Highly":[33],"accurate":[34],"reproducible":[36],"genotype":[37,55,59,98,170,250,283,288,297,327,355],"calling":[38,45,60,171,229,251,298],"paramount":[40],"since":[41],"errors":[42],"introduced":[43],"by":[44],"algorithms":[46,61],"can":[47],"lead":[48],"inflation":[50],"of":[51,73,76,93,111,116,121,127,142,177,227,235,335,362],"false":[52],"associations":[53],"between":[54],"phenotype.":[57],"Most":[58],"currently":[62],"used":[63,218,352],"for":[64,97,166,219,357],"GWAS":[65,301],"based":[67],"on":[68,132,168,266,281],"multiple":[69],"arrays.":[70],"Because":[71],"hundreds":[72],"gigabytes":[74],"(GB)":[75],"raw":[77,175],"data":[78,176,193],"generated":[80],"from":[81,194],"a":[82,130],"GWAS,":[83],"samples":[85,180,197,267,319,361],"typically":[87],"partitioned":[88],"into":[89,145,368],"batches":[90],"containing":[91],"subsets":[92],"dataset":[96],"calling.":[99],"High":[100],"call":[101,133,272,278],"rates":[102,273],"accuracies":[104],"have":[105,150],"been":[106,152],"achieved.":[107],"However,":[108],"effects":[110,144,167,262],"batch":[112,122,161,164,210,215,245,260,309,348],"size":[113,162,246,258,292],"(i.e.,":[114,124],"number":[115],"chips":[117,128],"analyzed":[118,158,181],"together)":[119],"composition":[123,165,248,261,294],"choice":[126],"in":[129,300,308,320,340],"batch)":[131],"rate":[134],"accuracy":[136],"well":[138],"propagation":[141],"significantly":[146,254,336],"SNPs":[148,237,269,338],"identified":[149,238,339],"not":[151],"investigated.":[153],"In":[154,359],"this":[155],"paper,":[156],"we":[157],"both":[159,244],"algorithm":[172],"BRLMM":[173,223],"using":[174,221,302],"270":[178,195],"HapMap":[179,196],"Affymetrix":[184,201],"Human":[185,202],"Mapping":[186,203],"500":[187,204],"K":[188,205],"array":[189,206],"set.":[190],"RESULTS:":[191],"Using":[192],"interrogated":[198],"set,":[207],"three":[208,213],"different":[209,214],"sizes":[211,349],"compositions":[216],"were":[217,263],"genotyping":[220],"algorithm.":[224],"Comparative":[225],"analysis":[226,241],"results":[230,252,299],"corresponding":[233],"lists":[234,334],"significant":[236],"through":[239],"revealed":[242],"affected":[249],"SNPs.":[256],"Batch":[257,291],"more":[264,316,324],"severe":[265],"lower":[271],"than":[274],"ones":[275],"higher":[277],"rates,":[279],"heterozygous":[282],"calls":[284,356],"compared":[285],"homozygous":[287],"calls.":[289,328],"CONCLUSION:":[290],"affect":[295],"BRLMM.":[303],"The":[304,315,329],"larger":[305,312],"differences":[307],"sizes,":[310],"effect.":[314],"homogenous":[317],"batches,":[322],"consistent":[325],"inconsistency":[330],"propagates":[331],"downstream":[341],"analysis.":[343],"Thus,":[344],"uniform":[345],"large":[347],"should":[350,365],"be":[351,366],"make":[354],"GWAS.":[358],"addition,":[360],"high":[363],"homogeneity":[364],"placed":[367],"same":[370],"batch.":[371]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":13},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":8}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}