{"id":"https://openalex.org/W2025989305","doi":"https://doi.org/10.1142/s0219720013430026","title":"THE PURITY MEASURE FOR GENOMIC REGIONS LEADS TO HORIZONTALLY TRANSFERRED GENES","display_name":"THE PURITY MEASURE FOR GENOMIC REGIONS LEADS TO HORIZONTALLY TRANSFERRED GENES","publication_year":2013,"publication_date":"2013-10-21","ids":{"openalex":"https://openalex.org/W2025989305","doi":"https://doi.org/10.1142/s0219720013430026","mag":"2025989305","pmid":"https://pubmed.ncbi.nlm.nih.gov/24372031"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720013430026","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720013430026","pdf_url":null,"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":null,"license_id":null,"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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5071198649","display_name":"Yuta Taniguchi","orcid":"https://orcid.org/0000-0003-3298-8124"},"institutions":[{"id":"https://openalex.org/I135598925","display_name":"Kyushu University","ror":"https://ror.org/00p4k0j84","country_code":"JP","type":"education","lineage":["https://openalex.org/I135598925"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"YUTA TANIGUCHI","raw_affiliation_strings":["Department of Informatics, Kyushu University, Fukuoka, Japan","[Department of Informatics, Kyushu University Fukuoka, Japan]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Informatics, Kyushu University, Fukuoka, Japan","institution_ids":["https://openalex.org/I135598925"]},{"raw_affiliation_string":"[Department of Informatics, Kyushu University Fukuoka, Japan]","institution_ids":["https://openalex.org/I135598925"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082127173","display_name":"Yasuhiro Yamada","orcid":"https://orcid.org/0000-0002-2463-1478"},"institutions":[{"id":"https://openalex.org/I169016828","display_name":"Shimane University","ror":"https://ror.org/01jaaym28","country_code":"JP","type":"education","lineage":["https://openalex.org/I169016828"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"YASUHIRO YAMADA","raw_affiliation_strings":["Interdisciplinary Graduate School of Science and Engineering, Shimane University, Matsue, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Interdisciplinary Graduate School of Science and Engineering, Shimane University, Matsue, Japan","institution_ids":["https://openalex.org/I169016828"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035228232","display_name":"Osamu Maruyama","orcid":"https://orcid.org/0000-0002-5760-1507"},"institutions":[{"id":"https://openalex.org/I135598925","display_name":"Kyushu University","ror":"https://ror.org/00p4k0j84","country_code":"JP","type":"education","lineage":["https://openalex.org/I135598925"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"OSAMU MARUYAMA","raw_affiliation_strings":["Institute of Mathematics for Industry, Kyushu University, Fukuoka, Japan","Institute of Mathematics for Industry, Kyushu University , Fukuoka, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Mathematics for Industry, Kyushu University, Fukuoka, Japan","institution_ids":["https://openalex.org/I135598925"]},{"raw_affiliation_string":"Institute of Mathematics for Industry, Kyushu University , Fukuoka, Japan","institution_ids":["https://openalex.org/I135598925"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067172907","display_name":"Satoru Kuhara","orcid":null},"institutions":[{"id":"https://openalex.org/I135598925","display_name":"Kyushu University","ror":"https://ror.org/00p4k0j84","country_code":"JP","type":"education","lineage":["https://openalex.org/I135598925"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"SATORU KUHARA","raw_affiliation_strings":["Department of Bioscience and Biotechnology, Faculty of Agriculture, Kyushu University, Fukuoka, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioscience and Biotechnology, Faculty of Agriculture, Kyushu University, Fukuoka, Japan","institution_ids":["https://openalex.org/I135598925"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013918876","display_name":"Daisuke Ikeda","orcid":"https://orcid.org/0000-0002-5666-7387"},"institutions":[{"id":"https://openalex.org/I135598925","display_name":"Kyushu University","ror":"https://ror.org/00p4k0j84","country_code":"JP","type":"education","lineage":["https://openalex.org/I135598925"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"DAISUKE IKEDA","raw_affiliation_strings":["Department of Informatics, Kyushu University, Fukuoka, Japan","[Department of Informatics, Kyushu University Fukuoka, Japan]"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Informatics, Kyushu University, Fukuoka, Japan","institution_ids":["https://openalex.org/I135598925"]},{"raw_affiliation_string":"[Department of Informatics, Kyushu University Fukuoka, Japan]","institution_ids":["https://openalex.org/I135598925"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.4425,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.64825064,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"11","issue":"06","first_page":"1343002","last_page":"1343002"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9993000030517578,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9991999864578247,"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/T11269","display_name":"Algorithms and Data Compression","score":0.9984999895095825,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/transposable-element","display_name":"Transposable element","score":0.8042936325073242},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6965877413749695},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6255332231521606},{"id":"https://openalex.org/keywords/measure","display_name":"Measure (data warehouse)","score":0.6132456064224243},{"id":"https://openalex.org/keywords/string","display_name":"String (physics)","score":0.6128410696983337},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5373924970626831},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5156489610671997},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.510597288608551},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4700416922569275},{"id":"https://openalex.org/keywords/mobile-genetic-elements","display_name":"Mobile genetic elements","score":0.4677942395210266},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.2393450140953064},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.22913825511932373},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.14651629328727722}],"concepts":[{"id":"https://openalex.org/C4918238","wikidata":"https://www.wikidata.org/wiki/Q121438","display_name":"Transposable element","level":4,"score":0.8042936325073242},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6965877413749695},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6255332231521606},{"id":"https://openalex.org/C2780009758","wikidata":"https://www.wikidata.org/wiki/Q6804172","display_name":"Measure (data warehouse)","level":2,"score":0.6132456064224243},{"id":"https://openalex.org/C157486923","wikidata":"https://www.wikidata.org/wiki/Q1376436","display_name":"String (physics)","level":2,"score":0.6128410696983337},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5373924970626831},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5156489610671997},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.510597288608551},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4700416922569275},{"id":"https://openalex.org/C132533263","wikidata":"https://www.wikidata.org/wiki/Q2347362","display_name":"Mobile genetic elements","level":4,"score":0.4677942395210266},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.2393450140953064},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.22913825511932373},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.14651629328727722},{"id":"https://openalex.org/C37914503","wikidata":"https://www.wikidata.org/wiki/Q156495","display_name":"Mathematical physics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004251","descriptor_name":"DNA Transposable Elements","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D022761","descriptor_name":"Gene Transfer, Horizontal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D022761","descriptor_name":"Gene Transfer, Horizontal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D022761","descriptor_name":"Gene Transfer, Horizontal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1142/s0219720013430026","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720013430026","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:24372031","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24372031","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":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6894120323","display_name":"Hierarchical Discovery of Sub-structures and Rare Patterns of Them in Large Text Data","funder_award_id":"24300059","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":false,"pdf":false},"content_urls":null,"referenced_works_count":27,"referenced_works":["https://openalex.org/W938539187","https://openalex.org/W1480187072","https://openalex.org/W1524040836","https://openalex.org/W1578516052","https://openalex.org/W1583773155","https://openalex.org/W1707641294","https://openalex.org/W1963918196","https://openalex.org/W1972770363","https://openalex.org/W1987923714","https://openalex.org/W2009570821","https://openalex.org/W2033218878","https://openalex.org/W2042573466","https://openalex.org/W2075388856","https://openalex.org/W2079934389","https://openalex.org/W2089357374","https://openalex.org/W2102204963","https://openalex.org/W2106983005","https://openalex.org/W2119952049","https://openalex.org/W2129581281","https://openalex.org/W2130124027","https://openalex.org/W2141394464","https://openalex.org/W2158406706","https://openalex.org/W2163191830","https://openalex.org/W2163960662","https://openalex.org/W2317352150","https://openalex.org/W3214380909","https://openalex.org/W4245668478"],"related_works":["https://openalex.org/W2053969879","https://openalex.org/W2903782536","https://openalex.org/W2082641564","https://openalex.org/W2107333779","https://openalex.org/W3108190435","https://openalex.org/W2790772971","https://openalex.org/W158947782","https://openalex.org/W1990380853","https://openalex.org/W1964419640","https://openalex.org/W1906262170"],"abstract_inverted_index":{"Sequence":[0],"analysis":[1],"is":[2,33,47,86,104,124],"important":[3],"to":[4,35,59,126],"understand":[5],"a":[6,9,40,112],"genome,":[7],"and":[8,17,55,79,91,97],"number":[10],"of":[11,27,39,70,72,114],"approaches":[12],"such":[13],"as":[14,93,95],"sequence":[15],"alignments":[16],"hidden":[18],"Markov":[19],"models":[20],"have":[21,60,99],"been":[22],"employed.":[23],"In":[24,64],"the":[25,30,67,121],"field":[26],"text":[28],"mining,":[29],"purity":[31,62,68,101,122],"measure":[32,123],"developed":[34],"detect":[36],"unusual":[37],"regions":[38,71,81],"string":[41],"without":[42],"any":[43],"domain":[44],"knowledge.":[45],"It":[46,85,103],"reported":[48],"in":[49],"that":[50,52,88,106,120],"work":[51],"only":[53],"RNAs":[54,96],"transposons":[56,98],"are":[57,77,82,108],"shown":[58],"high":[61,100],"values.":[63,102],"this":[65],"work,":[66],"values":[69],"various":[73],"bacterial":[74],"genome":[75],"sequences":[76],"computed,":[78],"those":[80],"analyzed":[83],"extensively.":[84],"found":[87],"mobile":[89],"elements":[90],"phages":[92],"well":[94],"interesting":[105],"they":[107],"all":[109],"classified":[110],"into":[111],"group":[113],"horizontally":[115,128],"transferred":[116,129],"genes.":[117,130],"This":[118],"means":[119],"useful":[125],"predict":[127]},"counts_by_year":[{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
