{"id":"https://openalex.org/W2515904916","doi":"https://doi.org/10.1142/s0219720016440030","title":"KDSNP: A kernel-based approach to detecting high-order SNP interactions","display_name":"KDSNP: A kernel-based approach to detecting high-order SNP interactions","publication_year":2016,"publication_date":"2016-08-29","ids":{"openalex":"https://openalex.org/W2515904916","doi":"https://doi.org/10.1142/s0219720016440030","mag":"2515904916","pmid":"https://pubmed.ncbi.nlm.nih.gov/27806683"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720016440030","is_oa":true,"landing_page_url":"https://doi.org/10.1142/s0219720016440030","pdf_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0219720016440030","source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0219720016440030","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5110593405","display_name":"Kento Kodama","orcid":null},"institutions":[{"id":"https://openalex.org/I207014233","display_name":"Kyushu Institute of Technology","ror":"https://ror.org/02278tr80","country_code":"JP","type":"education","lineage":["https://openalex.org/I207014233"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Kento Kodama","raw_affiliation_strings":["Department of Bioscience and Bioinformatics, Kyushu Institute of Technology, 680-4 Kawazu, Iizuka 820-8502, Fukuoka, Japan"],"affiliations":[{"raw_affiliation_string":"Department of Bioscience and Bioinformatics, Kyushu Institute of Technology, 680-4 Kawazu, Iizuka 820-8502, Fukuoka, Japan","institution_ids":["https://openalex.org/I207014233"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040675658","display_name":"Hiroto Saigo","orcid":"https://orcid.org/0000-0001-5314-5367"},"institutions":[{"id":"https://openalex.org/I207014233","display_name":"Kyushu Institute of Technology","ror":"https://ror.org/02278tr80","country_code":"JP","type":"education","lineage":["https://openalex.org/I207014233"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hiroto Saigo","raw_affiliation_strings":["Department of Bioscience and Bioinformatics, Kyushu Institute of Technology, 680-4 Kawazu, Iizuka 820-8502, Fukuoka, Japan"],"affiliations":[{"raw_affiliation_string":"Department of Bioscience and Bioinformatics, Kyushu Institute of Technology, 680-4 Kawazu, Iizuka 820-8502, Fukuoka, Japan","institution_ids":["https://openalex.org/I207014233"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5110593405"],"corresponding_institution_ids":["https://openalex.org/I207014233"],"apc_list":null,"apc_paid":null,"fwci":0.3004,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.74201704,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"14","issue":"05","first_page":"1644003","last_page":"1644003"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10594","display_name":"Genetic and phenotypic traits in livestock","score":0.9995999932289124,"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/T10594","display_name":"Genetic and phenotypic traits in livestock","score":0.9995999932289124,"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":0.9994999766349792,"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/T10261","display_name":"Genetic Associations and Epidemiology","score":0.9986000061035156,"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/epistasis","display_name":"Epistasis","score":0.847144603729248},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.6859307289123535},{"id":"https://openalex.org/keywords/snp","display_name":"SNP","score":0.5801517963409424},{"id":"https://openalex.org/keywords/quantitative-trait-locus","display_name":"Quantitative trait locus","score":0.5641779899597168},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.48991817235946655},{"id":"https://openalex.org/keywords/tag-snp","display_name":"Tag SNP","score":0.4560295641422272},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.43547362089157104},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.407329261302948},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3345552682876587},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.24403560161590576},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.18060868978500366}],"concepts":[{"id":"https://openalex.org/C61727976","wikidata":"https://www.wikidata.org/wiki/Q751748","display_name":"Epistasis","level":3,"score":0.847144603729248},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.6859307289123535},{"id":"https://openalex.org/C139275648","wikidata":"https://www.wikidata.org/wiki/Q17134011","display_name":"SNP","level":5,"score":0.5801517963409424},{"id":"https://openalex.org/C81941488","wikidata":"https://www.wikidata.org/wiki/Q853421","display_name":"Quantitative trait locus","level":3,"score":0.5641779899597168},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.48991817235946655},{"id":"https://openalex.org/C55060382","wikidata":"https://www.wikidata.org/wiki/Q7675093","display_name":"Tag SNP","level":5,"score":0.4560295641422272},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.43547362089157104},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.407329261302948},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3345552682876587},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.24403560161590576},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.18060868978500366}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000469","descriptor_name":"Alkaline Phosphatase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000469","descriptor_name":"Alkaline Phosphatase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000469","descriptor_name":"Alkaline Phosphatase","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005787","descriptor_name":"Gene Frequency","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005787","descriptor_name":"Gene Frequency","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005787","descriptor_name":"Gene Frequency","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008815","descriptor_name":"Mice, Inbred Strains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008815","descriptor_name":"Mice, Inbred Strains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008815","descriptor_name":"Mice, Inbred Strains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","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":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020641","descriptor_name":"Polymorphism, Single Nucleotide","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055106","descriptor_name":"Genome-Wide Association Study","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1142/s0219720016440030","is_oa":true,"landing_page_url":"https://doi.org/10.1142/s0219720016440030","pdf_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0219720016440030","source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:27806683","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27806683","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":"Journal of bioinformatics and computational biology","raw_type":null}],"best_oa_location":{"id":"doi:10.1142/s0219720016440030","is_oa":true,"landing_page_url":"https://doi.org/10.1142/s0219720016440030","pdf_url":"https://www.worldscientific.com/doi/pdf/10.1142/S0219720016440030","source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6591171787","display_name":"A GWAS study considering multiple genic/invironmental factors","funder_award_id":"25700004","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"}],"funders":[{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2515904916.pdf","grobid_xml":"https://content.openalex.org/works/W2515904916.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W1542652324","https://openalex.org/W1554944419","https://openalex.org/W1560724230","https://openalex.org/W1822695366","https://openalex.org/W1966315117","https://openalex.org/W1979090539","https://openalex.org/W1981723690","https://openalex.org/W1992140675","https://openalex.org/W2007447861","https://openalex.org/W2063575312","https://openalex.org/W2064013109","https://openalex.org/W2072986941","https://openalex.org/W2098057019","https://openalex.org/W2112966225","https://openalex.org/W2122291037","https://openalex.org/W2136582936","https://openalex.org/W2146766088","https://openalex.org/W2148985208","https://openalex.org/W2154562310","https://openalex.org/W2154572047","https://openalex.org/W2155496693","https://openalex.org/W2161633633","https://openalex.org/W2163953557","https://openalex.org/W2169438557","https://openalex.org/W2171250718","https://openalex.org/W2787894218","https://openalex.org/W3105132240","https://openalex.org/W3144619878","https://openalex.org/W4205232216","https://openalex.org/W4298876635"],"related_works":["https://openalex.org/W2016626084","https://openalex.org/W192057273","https://openalex.org/W1978000554","https://openalex.org/W2583457094","https://openalex.org/W2415959690","https://openalex.org/W2745006295","https://openalex.org/W2057218249","https://openalex.org/W2329144129","https://openalex.org/W2047365082","https://openalex.org/W2388756488"],"abstract_inverted_index":{"Despite":[0],"the":[1,45,53,71,112,125,128,134,141,150,158,161,205,217,220],"accumulation":[2],"of":[3,15,33,44,55,67,115,127,136,143,152,160,207,219],"quantitative":[4],"trait":[5],"loci":[6],"(QTL)":[7],"data":[8,123],"in":[9,121,156,179,216],"many":[10,34],"complex":[11,51],"human":[12],"diseases,":[13],"most":[14],"current":[16],"approaches":[17,75],"that":[18,47,140,196],"have":[19,26],"attempted":[20],"to":[21,24,40,64,88,131,149,168,173,213],"relate":[22],"genotype":[23],"phenotype":[25],"achieved":[27],"limited":[28],"success,":[29],"and":[30,106],"genetic":[31],"factors":[32],"common":[35],"diseases":[36],"are":[37],"yet":[38],"remained":[39],"be":[41],"elucidated.":[42],"One":[43],"reasons":[46],"makes":[48],"this":[49],"problem":[50],"is":[52,145,164,225],"existence":[54,206],"single":[56],"nucleotide":[57],"polymorphism":[58],"(SNP)":[59],"interaction,":[60],"or":[61],"epistasis.":[62],"Due":[63],"excessive":[65],"amount":[66],"computation":[68],"for":[69,110],"searching":[70],"combinatorial":[72],"space,":[73],"existing":[74],"cannot":[76],"fully":[77],"incorporate":[78],"high-order":[79],"SNP":[80,92],"interactions":[81],"into":[82],"their":[83],"models,":[84],"but":[85],"limit":[86],"themselves":[87],"detecting":[89],"only":[90],"lower-order":[91],"interactions.":[93],"We":[94],"present":[95],"an":[96],"empirical":[97],"approach":[98,172,191],"based":[99],"on":[100],"ridge":[101],"regression":[102],"with":[103],"polynomial":[104],"kernels":[105],"model":[107],"selection":[108],"technique":[109],"determining":[111],"true":[113],"degree":[114],"epistasis":[116],"among":[117],"SNPs.":[118,153,200],"Computer":[119],"experiments":[120,184],"simulated":[122],"show":[124],"ability":[126],"proposed":[129],"method":[130],"correctly":[132],"predict":[133],"number":[135,142,151,159],"interacting":[137,212],"SNPs":[138,211],"provided":[139],"samples":[144,163],"large":[146,176],"enough":[147],"relative":[148],"For":[154],"cases":[155],"which":[157],"available":[162,226],"limited,":[165],"we":[166],"propose":[167],"perform":[169],"sliding":[170],"window":[171],"ensure":[174],"sufficiently":[175],"sample/SNP":[177],"ratio":[178],"each":[180,214],"window.":[181],"In":[182],"computational":[183],"using":[185],"heterogeneous":[186],"stock":[187],"mice":[188],"data,":[189],"our":[190],"has":[192],"successfully":[193],"detected":[194],"subregions":[195],"harbor":[197],"known":[198,221],"causal":[199,210,222],"Our":[201],"analysis":[202],"further":[203],"suggests":[204],"additional":[208],"candidate":[209],"other":[215],"neighborhood":[218],"gene.":[223],"Software":[224],"from":[227],"https://github.com/HirotoSaigo/KDSNP":[228],".":[229]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2016,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}