{"id":"https://openalex.org/W2127644105","doi":"https://doi.org/10.1093/bioinformatics/btn632","title":"PanCGH: a genotype-calling algorithm for pangenome CGH data","display_name":"PanCGH: a genotype-calling algorithm for pangenome CGH data","publication_year":2009,"publication_date":"2009-01-07","ids":{"openalex":"https://openalex.org/W2127644105","doi":"https://doi.org/10.1093/bioinformatics/btn632","mag":"2127644105","pmid":"https://pubmed.ncbi.nlm.nih.gov/19129208"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btn632","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn632","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,"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"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2639077","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5040732518","display_name":"Jumamurat R. Bayjanov","orcid":"https://orcid.org/0000-0002-0637-9950"},"institutions":[{"id":"https://openalex.org/I145872427","display_name":"Radboud University Nijmegen","ror":"https://ror.org/016xsfp80","country_code":"NL","type":"education","lineage":["https://openalex.org/I145872427"]},{"id":"https://openalex.org/I2802934949","display_name":"Radboud University Medical Center","ror":"https://ror.org/05wg1m734","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2802934949"]},{"id":"https://openalex.org/I4210109357","display_name":"Radboud Institute for Molecular Life Sciences","ror":"https://ror.org/01yb10j39","country_code":"NL","type":"facility","lineage":["https://openalex.org/I145872427","https://openalex.org/I4210109357"]},{"id":"https://openalex.org/I4210109520","display_name":"TiFN","ror":"https://ror.org/0183vre95","country_code":"NL","type":"education","lineage":["https://openalex.org/I4210109520"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Jumamurat R. Bayjanov","raw_affiliation_strings":["1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands","institution_ids":["https://openalex.org/I4210109520","https://openalex.org/I145872427","https://openalex.org/I2802934949","https://openalex.org/I4210109357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063076124","display_name":"Michiel Wels","orcid":null},"institutions":[{"id":"https://openalex.org/I145872427","display_name":"Radboud University Nijmegen","ror":"https://ror.org/016xsfp80","country_code":"NL","type":"education","lineage":["https://openalex.org/I145872427"]},{"id":"https://openalex.org/I2802934949","display_name":"Radboud University Medical Center","ror":"https://ror.org/05wg1m734","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2802934949"]},{"id":"https://openalex.org/I4210109357","display_name":"Radboud Institute for Molecular Life Sciences","ror":"https://ror.org/01yb10j39","country_code":"NL","type":"facility","lineage":["https://openalex.org/I145872427","https://openalex.org/I4210109357"]},{"id":"https://openalex.org/I4210109520","display_name":"TiFN","ror":"https://ror.org/0183vre95","country_code":"NL","type":"education","lineage":["https://openalex.org/I4210109520"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Michiel Wels","raw_affiliation_strings":["1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands","institution_ids":["https://openalex.org/I4210109520","https://openalex.org/I145872427","https://openalex.org/I2802934949","https://openalex.org/I4210109357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110788404","display_name":"Marjo Starrenburg","orcid":null},"institutions":[{"id":"https://openalex.org/I145872427","display_name":"Radboud University Nijmegen","ror":"https://ror.org/016xsfp80","country_code":"NL","type":"education","lineage":["https://openalex.org/I145872427"]},{"id":"https://openalex.org/I2802934949","display_name":"Radboud University Medical Center","ror":"https://ror.org/05wg1m734","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2802934949"]},{"id":"https://openalex.org/I4210109357","display_name":"Radboud Institute for Molecular Life Sciences","ror":"https://ror.org/01yb10j39","country_code":"NL","type":"facility","lineage":["https://openalex.org/I145872427","https://openalex.org/I4210109357"]},{"id":"https://openalex.org/I4210109520","display_name":"TiFN","ror":"https://ror.org/0183vre95","country_code":"NL","type":"education","lineage":["https://openalex.org/I4210109520"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Marjo Starrenburg","raw_affiliation_strings":["1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands","institution_ids":["https://openalex.org/I4210109520","https://openalex.org/I145872427","https://openalex.org/I2802934949","https://openalex.org/I4210109357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110327534","display_name":"Johan E. T. van Hylckama Vlieg","orcid":null},"institutions":[{"id":"https://openalex.org/I145872427","display_name":"Radboud University Nijmegen","ror":"https://ror.org/016xsfp80","country_code":"NL","type":"education","lineage":["https://openalex.org/I145872427"]},{"id":"https://openalex.org/I2802934949","display_name":"Radboud University Medical Center","ror":"https://ror.org/05wg1m734","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2802934949"]},{"id":"https://openalex.org/I4210109357","display_name":"Radboud Institute for Molecular Life Sciences","ror":"https://ror.org/01yb10j39","country_code":"NL","type":"facility","lineage":["https://openalex.org/I145872427","https://openalex.org/I4210109357"]},{"id":"https://openalex.org/I4210109520","display_name":"TiFN","ror":"https://ror.org/0183vre95","country_code":"NL","type":"education","lineage":["https://openalex.org/I4210109520"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Johan E. T. van Hylckama Vlieg","raw_affiliation_strings":["1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands","institution_ids":["https://openalex.org/I4210109520","https://openalex.org/I145872427","https://openalex.org/I2802934949","https://openalex.org/I4210109357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015223743","display_name":"Roland J. Siezen","orcid":"https://orcid.org/0000-0002-9197-0744"},"institutions":[{"id":"https://openalex.org/I145872427","display_name":"Radboud University Nijmegen","ror":"https://ror.org/016xsfp80","country_code":"NL","type":"education","lineage":["https://openalex.org/I145872427"]},{"id":"https://openalex.org/I2802934949","display_name":"Radboud University Medical Center","ror":"https://ror.org/05wg1m734","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2802934949"]},{"id":"https://openalex.org/I4210109357","display_name":"Radboud Institute for Molecular Life Sciences","ror":"https://ror.org/01yb10j39","country_code":"NL","type":"facility","lineage":["https://openalex.org/I145872427","https://openalex.org/I4210109357"]},{"id":"https://openalex.org/I4210109520","display_name":"TiFN","ror":"https://ror.org/0183vre95","country_code":"NL","type":"education","lineage":["https://openalex.org/I4210109520"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Roland J. Siezen","raw_affiliation_strings":["1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands","institution_ids":["https://openalex.org/I4210109520","https://openalex.org/I145872427","https://openalex.org/I2802934949","https://openalex.org/I4210109357"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5047527401","display_name":"Douwe Molenaar","orcid":"https://orcid.org/0000-0001-7108-4545"},"institutions":[{"id":"https://openalex.org/I145872427","display_name":"Radboud University Nijmegen","ror":"https://ror.org/016xsfp80","country_code":"NL","type":"education","lineage":["https://openalex.org/I145872427"]},{"id":"https://openalex.org/I2802934949","display_name":"Radboud University Medical Center","ror":"https://ror.org/05wg1m734","country_code":"NL","type":"funder","lineage":["https://openalex.org/I2802934949"]},{"id":"https://openalex.org/I4210109357","display_name":"Radboud Institute for Molecular Life Sciences","ror":"https://ror.org/01yb10j39","country_code":"NL","type":"facility","lineage":["https://openalex.org/I145872427","https://openalex.org/I4210109357"]},{"id":"https://openalex.org/I4210109520","display_name":"TiFN","ror":"https://ror.org/0183vre95","country_code":"NL","type":"education","lineage":["https://openalex.org/I4210109520"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Douwe Molenaar","raw_affiliation_strings":["1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences, Radboud University Medical Centre, P.O. Box 9101, 6500 HB Nijmegen, 2NIZO food research, P.O. Box 20, 6710 BA Ede, 3TI Food and Nutrition, P.O. Box 557, 6700 AN Wageningen and 4Kluyver Centre for Genomics of Industrial Fermentation, Delft, The Netherlands","institution_ids":["https://openalex.org/I4210109520","https://openalex.org/I145872427","https://openalex.org/I2802934949","https://openalex.org/I4210109357"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":6.5582,"has_fulltext":false,"cited_by_count":27,"citation_normalized_percentile":{"value":0.96074046,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"25","issue":"3","first_page":"309","last_page":"314"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10141","display_name":"Probiotics and Fermented Foods","score":0.492900013923645,"subfield":{"id":"https://openalex.org/subfields/1106","display_name":"Food Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10141","display_name":"Probiotics and Fermented Foods","score":0.492900013923645,"subfield":{"id":"https://openalex.org/subfields/1106","display_name":"Food Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.22120000422000885,"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/T10066","display_name":"Gut microbiota and health","score":0.07590000331401825,"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/genome","display_name":"Genome","score":0.7678068280220032},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7464049458503723},{"id":"https://openalex.org/keywords/subspecies","display_name":"Subspecies","score":0.6854948401451111},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5943744778633118},{"id":"https://openalex.org/keywords/genotype","display_name":"Genotype","score":0.5318642854690552},{"id":"https://openalex.org/keywords/genetic-diversity","display_name":"Genetic diversity","score":0.49118682742118835},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4890340268611908},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.41463610529899597},{"id":"https://openalex.org/keywords/zoology","display_name":"Zoology","score":0.06662976741790771},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.05601900815963745}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7678068280220032},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7464049458503723},{"id":"https://openalex.org/C17966761","wikidata":"https://www.wikidata.org/wiki/Q68947","display_name":"Subspecies","level":2,"score":0.6854948401451111},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5943744778633118},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.5318642854690552},{"id":"https://openalex.org/C81977670","wikidata":"https://www.wikidata.org/wiki/Q585259","display_name":"Genetic diversity","level":3,"score":0.49118682742118835},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4890340268611908},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.41463610529899597},{"id":"https://openalex.org/C90856448","wikidata":"https://www.wikidata.org/wiki/Q431","display_name":"Zoology","level":1,"score":0.06662976741790771},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.05601900815963745},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0}],"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":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005838","descriptor_name":"Genotype","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055028","descriptor_name":"Comparative Genomic Hybridization","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055028","descriptor_name":"Comparative Genomic Hybridization","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055028","descriptor_name":"Comparative Genomic Hybridization","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1093/bioinformatics/btn632","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn632","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,"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:19129208","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19129208","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.789.9071","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.789.9071","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/41/53/btn632.PMC2639077.pdf","raw_type":"text"},{"id":"pmh:oai:dare.ubvu.vu.nl:1871/30232","is_oa":false,"landing_page_url":"http://hdl.handle.net/1871/30232","pdf_url":null,"source":{"id":"https://openalex.org/S4306400546","display_name":"Digital Academic REpository of VU University Amsterdam (Vrije Universiteit Amsterdam)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"25","raw_type":"Article / Letter to editor"},{"id":"pmh:oai:pubmedcentral.nih.gov:2639077","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2639077","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:repository.ubn.ru.nl:2066/81762","is_oa":false,"landing_page_url":"http://hdl.handle.net/2066/81762","pdf_url":null,"source":{"id":"https://openalex.org/S4306401067","display_name":"Radboud Repository (Radboud University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I145872427","host_organization_name":"Radboud University Nijmegen","host_organization_lineage":["https://openalex.org/I145872427"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 25, 3, pp. 309-14","raw_type":"Article / Letter to editor"},{"id":"pmh:vu:oai:research.vu.nl:publications/dcc0135f-5a4b-426a-87d4-74db98828d41","is_oa":true,"landing_page_url":"https://research.vu.nl/en/publications/dcc0135f-5a4b-426a-87d4-74db98828d41","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 25, 309 - 314. Oxford University Press","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:2639077","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2639077","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.5899999737739563,"display_name":"Life in Land"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W1480376833","https://openalex.org/W1580985675","https://openalex.org/W1605701032","https://openalex.org/W1968046362","https://openalex.org/W1979036766","https://openalex.org/W1983761774","https://openalex.org/W1993730176","https://openalex.org/W2003576629","https://openalex.org/W2022366078","https://openalex.org/W2032870665","https://openalex.org/W2055615325","https://openalex.org/W2088012478","https://openalex.org/W2098686923","https://openalex.org/W2103313607","https://openalex.org/W2109055419","https://openalex.org/W2111107538","https://openalex.org/W2114214209","https://openalex.org/W2116267665","https://openalex.org/W2119004823","https://openalex.org/W2133777675","https://openalex.org/W2136899088","https://openalex.org/W2143825552","https://openalex.org/W2145100181","https://openalex.org/W2145525811","https://openalex.org/W2147298104","https://openalex.org/W2148666143","https://openalex.org/W2155047210","https://openalex.org/W2157825442","https://openalex.org/W2159266221","https://openalex.org/W2164883758","https://openalex.org/W2167188257","https://openalex.org/W2170530228","https://openalex.org/W2582743722","https://openalex.org/W6754431186"],"related_works":["https://openalex.org/W2023907980","https://openalex.org/W2175107114","https://openalex.org/W3152056910","https://openalex.org/W4230593899","https://openalex.org/W2560577326","https://openalex.org/W2158559773","https://openalex.org/W2017361174","https://openalex.org/W2187207551","https://openalex.org/W2069184423","https://openalex.org/W1603543036"],"abstract_inverted_index":{"MOTIVATION:":[0],"Pangenome":[1],"arrays":[2,109],"contain":[3],"DNA":[4],"oligomers":[5],"targeting":[6],"several":[7],"sequenced":[8,115],"reference":[9],"genomes":[10,113],"from":[11,138,146],"the":[12,23,45,57,66,85,96,112,128,158,173,176],"same":[13],"species.":[14],"In":[15],"microbiology,":[16],"these":[17,155],"can":[18,73],"be":[19,75],"employed":[20],"to":[21,47,65,77,94],"investigate":[22],"often":[24],"high":[25,67],"genetic":[26,68,131],"variability":[27],"within":[28],"a":[29,51,104,118,165],"species":[30],"by":[31,55],"comparative":[32],"genome":[33],"hybridization":[34],"(CGH).":[35],"The":[36],"biological":[37],"interpretation":[38],"of":[39,61,100,114,117,120,130,154,161,175],"pangenome":[40,78],"CGH":[41,79,108],"data":[42,160],"depends":[43],"on":[44],"ability":[46],"compare":[48],"strains":[49,137,156],"at":[50],"functional":[52],"level,":[53],"particularly":[54],"comparing":[56],"presence":[58,97],"or":[59,98],"absence":[60,99],"orthologous":[62,101],"genes.":[63],"Due":[64],"variability,":[69],"available":[70],"genotype-calling":[71],"algorithms":[72],"not":[74],"applied":[76,126],"data.":[80],"RESULTS:":[81],"We":[82],"have":[83],"developed":[84],"algorithm":[86],"PanCGH":[87,122],"that":[88,110],"incorporates":[89],"orthology":[90],"information":[91],"about":[92],"genes":[93,102],"predict":[95],"in":[103,127],"query":[105],"organism":[106],"using":[107,157],"target":[111],"representatives":[116],"group":[119],"microorganisms.":[121],"was":[123],"tested":[124],"and":[125,144,151,171],"analysis":[129],"diversity":[132],"among":[133],"39":[134],"Lactococcus":[135],"lactis":[136],"three":[139],"different":[140,148,169],"subspecies":[141,170],"(lactis.cremoris,":[142],"hordniae)":[143],"isolated":[145],"two":[147],"niches":[149],"(dairy":[150],"plant).":[152],"Clustering":[153],"presence/absence":[159],"gene":[162],"orthologs":[163],"revealed":[164],"clear":[166],"separation":[167],"between":[168],"reflected":[172],"niche":[174],"strains.":[177]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2013,"cited_by_count":5},{"year":2012,"cited_by_count":1}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2025-10-10T00:00:00"}