{"id":"https://openalex.org/W2101739507","doi":"https://doi.org/10.1155/2009/749027","title":"Assessing the Quality of Whole Genome Alignments in Bacteria","display_name":"Assessing the Quality of Whole Genome Alignments in Bacteria","publication_year":2009,"publication_date":"2009-11-15","ids":{"openalex":"https://openalex.org/W2101739507","doi":"https://doi.org/10.1155/2009/749027","mag":"2101739507","pmid":"https://pubmed.ncbi.nlm.nih.gov/20049164"},"language":"en","primary_location":{"id":"doi:10.1155/2009/749027","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2009/749027","pdf_url":"https://downloads.hindawi.com/archive/2009/749027.pdf","source":{"id":"https://openalex.org/S146125958","display_name":"Advances in Bioinformatics","issn_l":"1687-8027","issn":["1687-8027","1687-8035"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advances in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://downloads.hindawi.com/archive/2009/749027.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010354074","display_name":"Firas Swidan","orcid":null},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":true,"raw_author_name":"Firas Swidan","raw_affiliation_strings":["The Blavatnik School of Computer Science, Tel Aviv University, Tel Aviv 69978, Israel","The Blavatnik School of Computer Science, Tel Aviv University, Tel-Aviv 69978, Israel"],"affiliations":[{"raw_affiliation_string":"The Blavatnik School of Computer Science, Tel Aviv University, Tel Aviv 69978, Israel","institution_ids":["https://openalex.org/I16391192"]},{"raw_affiliation_string":"The Blavatnik School of Computer Science, Tel Aviv University, Tel-Aviv 69978, Israel","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5038806020","display_name":"Ron Shamir","orcid":"https://orcid.org/0000-0003-1889-9870"},"institutions":[{"id":"https://openalex.org/I16391192","display_name":"Tel Aviv University","ror":"https://ror.org/04mhzgx49","country_code":"IL","type":"education","lineage":["https://openalex.org/I16391192"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Ron Shamir","raw_affiliation_strings":["The Blavatnik School of Computer Science, Tel Aviv University, Tel Aviv 69978, Israel","The Blavatnik School of Computer Science, Tel Aviv University, Tel-Aviv 69978, Israel"],"affiliations":[{"raw_affiliation_string":"The Blavatnik School of Computer Science, Tel Aviv University, Tel Aviv 69978, Israel","institution_ids":["https://openalex.org/I16391192"]},{"raw_affiliation_string":"The Blavatnik School of Computer Science, Tel Aviv University, Tel-Aviv 69978, Israel","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5010354074"],"corresponding_institution_ids":["https://openalex.org/I16391192"],"apc_list":null,"apc_paid":null,"fwci":0.4044,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.63968321,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"2009","issue":null,"first_page":"1","last_page":"8"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"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":0.9998999834060669,"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/T10141","display_name":"Probiotics and Fermented Foods","score":0.9818000197410583,"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/T13664","display_name":"Genome Rearrangement Algorithms","score":0.9797999858856201,"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/genome","display_name":"Genome","score":0.829413652420044},{"id":"https://openalex.org/keywords/bacterial-genome-size","display_name":"Bacterial genome size","score":0.5276609659194946},{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.5260493755340576},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5190585255622864},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4984934329986572},{"id":"https://openalex.org/keywords/matching","display_name":"Matching (statistics)","score":0.4535773694515228},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.42248067259788513},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3245953321456909},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2522510886192322},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2123183012008667},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.09238582849502563},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.09194490313529968}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.829413652420044},{"id":"https://openalex.org/C3742359","wikidata":"https://www.wikidata.org/wiki/Q4839988","display_name":"Bacterial genome size","level":4,"score":0.5276609659194946},{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.5260493755340576},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5190585255622864},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4984934329986572},{"id":"https://openalex.org/C165064840","wikidata":"https://www.wikidata.org/wiki/Q1321061","display_name":"Matching (statistics)","level":2,"score":0.4535773694515228},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.42248067259788513},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3245953321456909},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2522510886192322},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2123183012008667},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.09238582849502563},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.09194490313529968}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1155/2009/749027","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2009/749027","pdf_url":"https://downloads.hindawi.com/archive/2009/749027.pdf","source":{"id":"https://openalex.org/S146125958","display_name":"Advances in Bioinformatics","issn_l":"1687-8027","issn":["1687-8027","1687-8035"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advances in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:20049164","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20049164","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":"Advances in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:2798158","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2798158","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":"Adv Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1155/2009/749027","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2009/749027","pdf_url":"https://downloads.hindawi.com/archive/2009/749027.pdf","source":{"id":"https://openalex.org/S146125958","display_name":"Advances in Bioinformatics","issn_l":"1687-8027","issn":["1687-8027","1687-8035"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Advances in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4811376114","display_name":null,"funder_award_id":"802/08","funder_id":"https://openalex.org/F4320322252","funder_display_name":"Israel Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320322252","display_name":"Israel Science Foundation","ror":"https://ror.org/04sazxf24"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2101739507.pdf","grobid_xml":"https://content.openalex.org/works/W2101739507.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W319819633","https://openalex.org/W1582212884","https://openalex.org/W1976971681","https://openalex.org/W1981340203","https://openalex.org/W1986009232","https://openalex.org/W1989511261","https://openalex.org/W1991330646","https://openalex.org/W1995117714","https://openalex.org/W2006746194","https://openalex.org/W2027831845","https://openalex.org/W2057998009","https://openalex.org/W2079365725","https://openalex.org/W2092904290","https://openalex.org/W2112132489","https://openalex.org/W2115918447","https://openalex.org/W2122598328","https://openalex.org/W2127596034","https://openalex.org/W2131148812","https://openalex.org/W2131852975","https://openalex.org/W2137285541","https://openalex.org/W2137591261","https://openalex.org/W2137780942","https://openalex.org/W2142237411","https://openalex.org/W2144866873","https://openalex.org/W2145100181","https://openalex.org/W2151302772","https://openalex.org/W2159266221","https://openalex.org/W2161762698","https://openalex.org/W2162156442","https://openalex.org/W2325343629","https://openalex.org/W3016230452","https://openalex.org/W4252684946"],"related_works":["https://openalex.org/W2889029343","https://openalex.org/W2079327011","https://openalex.org/W2056973287","https://openalex.org/W2061340009","https://openalex.org/W3111025641","https://openalex.org/W3202542829","https://openalex.org/W1965562485","https://openalex.org/W2340204314","https://openalex.org/W2046657386","https://openalex.org/W1956137100"],"abstract_inverted_index":{"Comparing":[0],"genomes":[1,19,101],"is":[2,20,47,59,68,111],"an":[3],"essential":[4],"preliminary":[5],"step":[6],"to":[7,60,116],"solve":[8],"many":[9],"problems":[10],"in":[11,38,133],"biology.":[12],"Matching":[13],"long":[14],"similar":[15],"segments":[16,90],"between":[17,152],"two":[18,52,100,109,138],"a":[21,41],"precondition":[22],"for":[23],"their":[24,45],"evolutionary,":[25],"genetic,":[26],"and":[27,95],"genome":[28,74,120],"rearrangement":[29],"analyses.":[30],"Though":[31],"various":[32],"comparison":[33,63,121],"methods":[34],"have":[35],"been":[36],"developed":[37],"recent":[39],"years,":[40],"quantitative":[42],"assessment":[43,55],"of":[44,54,80,89,98,107,119,127,136,140],"performance":[46],"lacking.":[48],"Here,":[49],"we":[50],"describe":[51],"families":[53],"measures":[56,110],"whose":[57],"purpose":[58],"evaluate":[61],"bacteria-oriented":[62],"tools.":[64,155],"The":[65,105],"first":[66],"measure":[67],"based":[69],"on":[70,124],"how":[71],"well":[72],"the":[73,77,81,84,87,93,96,99,108,117,131,134,137,149,153],"segmentation":[75,94],"fits":[76],"gene":[78],"annotation":[79],"studied":[82],"organisms;":[83],"second":[85],"uses":[86],"number":[88],"created":[91],"by":[92,113],"percentage":[97],"that":[102],"are":[103],"conserved.":[104],"effectiveness":[106],"demonstrated":[112],"applying":[114],"them":[115],"results":[118],"tools":[122],"obtained":[123],"41":[125],"pairs":[126],"bacterial":[128],"species.":[129],"Despite":[130],"difference":[132],"nature":[135],"types":[139],"measurements,":[141],"both":[142],"show":[143],"consistent":[144],"results,":[145],"providing":[146],"insights":[147],"into":[148],"subtle":[150],"differences":[151],"mapping":[154]},"counts_by_year":[{"year":2015,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
