{"id":"https://openalex.org/W2105423910","doi":"https://doi.org/10.1186/1471-2105-9-15","title":"Multiple organism algorithm for finding ultraconserved elements","display_name":"Multiple organism algorithm for finding ultraconserved elements","publication_year":2008,"publication_date":"2008-01-11","ids":{"openalex":"https://openalex.org/W2105423910","doi":"https://doi.org/10.1186/1471-2105-9-15","mag":"2105423910","pmid":"https://pubmed.ncbi.nlm.nih.gov/18186941"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-9-15","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-15","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-15","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/10.1186/1471-2105-9-15","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078078996","display_name":"Scott Christley","orcid":"https://orcid.org/0000-0002-9889-1221"},"institutions":[{"id":"https://openalex.org/I107639228","display_name":"University of Notre Dame","ror":"https://ror.org/00mkhxb43","country_code":"US","type":"education","lineage":["https://openalex.org/I107639228"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Scott Christley","raw_affiliation_strings":["Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN, 46556, USA. schristl@nd.edu","Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN, 46556, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN, 46556, USA. schristl@nd.edu","institution_ids":["https://openalex.org/I107639228"]},{"raw_affiliation_string":"Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN, 46556, USA","institution_ids":["https://openalex.org/I107639228"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5107834683","display_name":"Neil F. Lobo","orcid":null},"institutions":[{"id":"https://openalex.org/I107639228","display_name":"University of Notre Dame","ror":"https://ror.org/00mkhxb43","country_code":"US","type":"education","lineage":["https://openalex.org/I107639228"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Neil F Lobo","raw_affiliation_strings":["Department of Biological Sciences, University of Notre Dame, Notre Dame, IN, 46556, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, University of Notre Dame, Notre Dame, IN, 46556, USA","institution_ids":["https://openalex.org/I107639228"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5113594168","display_name":"Greg Madey","orcid":null},"institutions":[{"id":"https://openalex.org/I107639228","display_name":"University of Notre Dame","ror":"https://ror.org/00mkhxb43","country_code":"US","type":"education","lineage":["https://openalex.org/I107639228"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Greg Madey","raw_affiliation_strings":["Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN, 46556, USA","Interdisciplinary Center for the Study of Biocomplexity, University of Notre Dame, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN, 46556, USA","institution_ids":["https://openalex.org/I107639228"]},{"raw_affiliation_string":"Interdisciplinary Center for the Study of Biocomplexity, University of Notre Dame, USA","institution_ids":["https://openalex.org/I107639228"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5078078996"],"corresponding_institution_ids":["https://openalex.org/I107639228"],"apc_list":{"value":2990,"currency":"USD","value_usd":2990},"apc_paid":{"value":2990,"currency":"USD","value_usd":2990},"fwci":0.6495,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.68462285,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"9","issue":"1","first_page":"15","last_page":"15"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.6043000221252441,"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":0.6043000221252441,"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/T13664","display_name":"Genome Rearrangement Algorithms","score":0.16529999673366547,"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/T12946","display_name":"Fractal and DNA sequence analysis","score":0.06340000033378601,"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":0.74805748462677},{"id":"https://openalex.org/keywords/organism","display_name":"Organism","score":0.5781179070472717},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5254582166671753},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.49738290905952454},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4724103510379791},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.47095948457717896},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4682264029979706},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4297296702861786},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.32328373193740845},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2790960967540741},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.23357930779457092}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.74805748462677},{"id":"https://openalex.org/C137858568","wikidata":"https://www.wikidata.org/wiki/Q7239","display_name":"Organism","level":2,"score":0.5781179070472717},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5254582166671753},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.49738290905952454},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4724103510379791},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.47095948457717896},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4682264029979706},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4297296702861786},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.32328373193740845},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2790960967540741},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.23357930779457092},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","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":"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":"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":"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":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013045","descriptor_name":"Species Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-9-15","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-15","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-15","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:18186941","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18186941","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":"Journal Article"},{"id":"pmh:oai:europepmc.org:1833051","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2244594","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:527c001669af45b5a0a819fe7796d4d6","is_oa":true,"landing_page_url":"https://doaj.org/article/527c001669af45b5a0a819fe7796d4d6","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 1, p 15 (2008)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-9-15","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-9-15","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-9-15","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":[],"awards":[{"id":"https://openalex.org/G251943523","display_name":"Acquisition of the Notre Dame Biocomplexity Computer Cluster","funder_award_id":"0420980","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7199261362","display_name":null,"funder_award_id":"HHSN266200400039C","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G8769663279","display_name":null,"funder_award_id":"HHSN266200400039C","funder_id":"https://openalex.org/F4320332505","funder_display_name":"U.S. Public Health Service"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332505","display_name":"U.S. Public Health Service","ror":"https://ror.org/05xf94514"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2105423910.pdf","grobid_xml":"https://content.openalex.org/works/W2105423910.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W8187158","https://openalex.org/W938539187","https://openalex.org/W1531954825","https://openalex.org/W1990061958","https://openalex.org/W2057998009","https://openalex.org/W2087721273","https://openalex.org/W2090415636","https://openalex.org/W2095685450","https://openalex.org/W2095824228","https://openalex.org/W2098001104","https://openalex.org/W2100775895","https://openalex.org/W2100990361","https://openalex.org/W2107282968","https://openalex.org/W2112555386","https://openalex.org/W2116251070","https://openalex.org/W2117936709","https://openalex.org/W2124281279","https://openalex.org/W2124348703","https://openalex.org/W2127230663","https://openalex.org/W2128591967","https://openalex.org/W2134283755","https://openalex.org/W2136145671","https://openalex.org/W2143286856","https://openalex.org/W2145191876","https://openalex.org/W2147499400","https://openalex.org/W2152331922","https://openalex.org/W2155237411","https://openalex.org/W2157338021","https://openalex.org/W2158714788","https://openalex.org/W2158874082","https://openalex.org/W4210241463","https://openalex.org/W4238545668","https://openalex.org/W6806866965"],"related_works":["https://openalex.org/W24843447","https://openalex.org/W94193318","https://openalex.org/W1547180633","https://openalex.org/W2073808674","https://openalex.org/W2173289516","https://openalex.org/W322176015","https://openalex.org/W20947408","https://openalex.org/W2028140658","https://openalex.org/W2073011570","https://openalex.org/W2468061618"],"abstract_inverted_index":{"BACKGROUND:":[0],"Ultraconserved":[1],"elements":[2,49,140],"are":[3,32],"nucleotide":[4],"or":[5,14,20,23],"protein":[6],"sequences":[7,78,93],"with":[8,34,225,253],"100%":[9],"identity":[10],"(no":[11],"mismatches,":[12],"insertions,":[13],"deletions)":[15],"in":[16,187,211],"the":[17,55,76,96,149,154,212,246],"same":[18,247],"organism":[19],"between":[21,79],"two":[22],"more":[24],"organisms.":[25,83],"Studies":[26],"indicate":[27],"that":[28,90,195],"these":[29,48],"conserved":[30],"regions":[31],"associated":[33],"micro":[35],"RNAs,":[36],"mRNA":[37],"processing,":[38],"development":[39],"and":[40,45,66,108,151,163,185,214,244],"transcription":[41],"regulation.":[42],"The":[43,101],"identification":[44],"characterization":[46],"of":[47,58,75,81,148,169,216,228],"among":[50],"genomes":[51,80,97,115,134,210],"is":[52,103,109,182],"necessary":[53],"for":[54,179,190,235],"further":[56],"understanding":[57],"their":[59],"functionality.":[60],"RESULTS:":[61],"We":[62,117,193],"describe":[63],"an":[64],"algorithm":[65,85,102,120,219],"provide":[67],"freely":[68],"available":[69,252],"software":[70],"which":[71],"can":[72],"find":[73,137,167],"all":[74,92,147],"ultraconserved":[77,139],"multiple":[82,180,206],"Our":[84,218],"takes":[86],"a":[87,222,226],"combinatorial":[88],"approach":[89],"finds":[91],"without":[94],"requiring":[95,240],"to":[98,111,126,166],"be":[99,199],"aligned.":[100],"significantly":[104],"faster":[105],"than":[106,142],"BLAST":[107],"designed":[110],"handle":[112],"very":[113],"large":[114,123],"efficiently.":[116],"ran":[118],"our":[119,188],"on":[121,205],"several":[122],"comparative":[124,177],"analyses":[125],"evaluate":[127],"its":[128],"effectiveness;":[129],"one":[130],"compared":[131,153],"17":[132],"vertebrate":[133],"where":[135],"we":[136],"123":[138],"longer":[141],"40":[143],"bps":[144],"shared":[145],"by":[146,202],"organisms,":[150],"another":[152],"human":[155],"body":[156],"louse,":[157],"Pediculus":[158],"humanus":[159],"humanus,":[160],"against":[161],"itself":[162],"select":[164],"insects":[165],"thousands":[168],"non-coding,":[170],"potentially":[171],"functional":[172],"sequences.":[173],"CONCLUSION:":[174],"Whole":[175],"genome":[176],"analysis":[178,204],"organisms":[181],"both":[183],"feasible":[184],"desirable":[186],"search":[189],"biological":[191],"knowledge.":[192],"argue":[194],"bioinformatic":[196],"programs":[197],"should":[198],"forward":[200],"thinking":[201],"assuming":[203],"(and":[207],"possibly":[208],"large)":[209],"design":[213,224],"implementation":[215],"algorithms.":[217],"shows":[220],"how":[221],"compromise":[223],"trade-off":[227],"disk":[229],"space":[230,233],"versus":[231],"memory":[232],"allows":[234],"efficient":[236],"computation":[237],"while":[238],"only":[239],"modest":[241],"computer":[242],"resources,":[243],"at":[245],"time":[248],"providing":[249],"benefits":[250],"not":[251],"other":[254],"software.":[255]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-08-24T07:32:12.397491","created_date":"2025-10-10T00:00:00"}