{"id":"https://openalex.org/W2118716355","doi":"https://doi.org/10.1186/1748-7188-9-4","title":"Assessing the efficiency of multiple sequence alignment programs","display_name":"Assessing the efficiency of multiple sequence alignment programs","publication_year":2014,"publication_date":"2014-03-06","ids":{"openalex":"https://openalex.org/W2118716355","doi":"https://doi.org/10.1186/1748-7188-9-4","mag":"2118716355","pmid":"https://pubmed.ncbi.nlm.nih.gov/24602402"},"language":"en","primary_location":{"id":"doi:10.1186/1748-7188-9-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1748-7188-9-4","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/1748-7188-9-4","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"Algorithms for Molecular Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/1748-7188-9-4","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5026298246","display_name":"Fabiano Pais","orcid":"https://orcid.org/0000-0001-5958-2867"},"institutions":[{"id":"https://openalex.org/I140062455","display_name":"Instituto Federal de Educa\u00e7\u00e3o, Ci\u00eancia e Tecnologia de Minas Gerais","ror":"https://ror.org/0553w5c95","country_code":"BR","type":"education","lineage":["https://openalex.org/I1293487690","https://openalex.org/I140062455","https://openalex.org/I2801200668"]},{"id":"https://openalex.org/I52325","display_name":"Funda\u00e7\u00e3o Oswaldo Cruz","ror":"https://ror.org/04jhswv08","country_code":"BR","type":"facility","lineage":["https://openalex.org/I52325"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Fabiano Sviatopolk-Mirsky Pais","raw_affiliation_strings":["Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG Brazil","Genomics and Computational Biology Group, CPqRR, Instituto Nacional de Ci\u00eancia e Tecnologia, FIOCRUZ/Minas, Belo Horizonte, MG Brazil","Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG Brazil","institution_ids":["https://openalex.org/I52325"]},{"raw_affiliation_string":"Genomics and Computational Biology Group, CPqRR, Instituto Nacional de Ci\u00eancia e Tecnologia, FIOCRUZ/Minas, Belo Horizonte, MG Brazil","institution_ids":["https://openalex.org/I140062455"]},{"raw_affiliation_string":"Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG, Brazil","institution_ids":["https://openalex.org/I52325"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037887880","display_name":"Patr\u00edcia de C\u00e1ssia Ruy","orcid":"https://orcid.org/0000-0001-5565-8115"},"institutions":[{"id":"https://openalex.org/I52325","display_name":"Funda\u00e7\u00e3o Oswaldo Cruz","ror":"https://ror.org/04jhswv08","country_code":"BR","type":"facility","lineage":["https://openalex.org/I52325"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Patr\u00edcia de C\u00e1ssia Ruy","raw_affiliation_strings":["Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG Brazil","Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG Brazil","institution_ids":["https://openalex.org/I52325"]},{"raw_affiliation_string":"Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG, Brazil","institution_ids":["https://openalex.org/I52325"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048496084","display_name":"Guilherme Oliveira","orcid":"https://orcid.org/0000-0003-0054-3438"},"institutions":[{"id":"https://openalex.org/I140062455","display_name":"Instituto Federal de Educa\u00e7\u00e3o, Ci\u00eancia e Tecnologia de Minas Gerais","ror":"https://ror.org/0553w5c95","country_code":"BR","type":"education","lineage":["https://openalex.org/I1293487690","https://openalex.org/I140062455","https://openalex.org/I2801200668"]},{"id":"https://openalex.org/I52325","display_name":"Funda\u00e7\u00e3o Oswaldo Cruz","ror":"https://ror.org/04jhswv08","country_code":"BR","type":"facility","lineage":["https://openalex.org/I52325"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Guilherme Oliveira","raw_affiliation_strings":["Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG Brazil","Genomics and Computational Biology Group, CPqRR, Instituto Nacional de Ci\u00eancia e Tecnologia, FIOCRUZ/Minas, Belo Horizonte, MG Brazil","Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG Brazil","institution_ids":["https://openalex.org/I52325"]},{"raw_affiliation_string":"Genomics and Computational Biology Group, CPqRR, Instituto Nacional de Ci\u00eancia e Tecnologia, FIOCRUZ/Minas, Belo Horizonte, MG Brazil","institution_ids":["https://openalex.org/I140062455"]},{"raw_affiliation_string":"Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG, Brazil","institution_ids":["https://openalex.org/I52325"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056228168","display_name":"Roney S. Coimbra","orcid":"https://orcid.org/0000-0002-9204-0573"},"institutions":[{"id":"https://openalex.org/I140062455","display_name":"Instituto Federal de Educa\u00e7\u00e3o, Ci\u00eancia e Tecnologia de Minas Gerais","ror":"https://ror.org/0553w5c95","country_code":"BR","type":"education","lineage":["https://openalex.org/I1293487690","https://openalex.org/I140062455","https://openalex.org/I2801200668"]},{"id":"https://openalex.org/I4210141214","display_name":"Biocor Institute","ror":"https://ror.org/04kbvxz10","country_code":"BR","type":"healthcare","lineage":["https://openalex.org/I4210141214"]},{"id":"https://openalex.org/I52325","display_name":"Funda\u00e7\u00e3o Oswaldo Cruz","ror":"https://ror.org/04jhswv08","country_code":"BR","type":"facility","lineage":["https://openalex.org/I52325"]}],"countries":["BR"],"is_corresponding":true,"raw_author_name":"Roney Santos Coimbra","raw_affiliation_strings":["Biosystems Informatics, CPqRR, FIOCRUZ/Minas, Avenida Augusto de Lima 1715. Barro Preto, Belo Horizonte, MG Brazil","Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG Brazil","Genomics and Computational Biology Group, CPqRR, Instituto Nacional de Ci\u00eancia e Tecnologia, FIOCRUZ/Minas, Belo Horizonte, MG Brazil","Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biosystems Informatics, CPqRR, FIOCRUZ/Minas, Avenida Augusto de Lima 1715. Barro Preto, Belo Horizonte, MG Brazil","institution_ids":["https://openalex.org/I4210141214"]},{"raw_affiliation_string":"Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG Brazil","institution_ids":["https://openalex.org/I52325"]},{"raw_affiliation_string":"Genomics and Computational Biology Group, CPqRR, Instituto Nacional de Ci\u00eancia e Tecnologia, FIOCRUZ/Minas, Belo Horizonte, MG Brazil","institution_ids":["https://openalex.org/I140062455"]},{"raw_affiliation_string":"Center for Excellence in Bioinformatics, Centro de Pesquisas Ren\u00e9 Rachou (CPqRR), Funda\u00e7\u00e3o Oswaldo Cruz (FIOCRUZ/Minas), Belo Horizonte, MG, Brazil","institution_ids":["https://openalex.org/I52325"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5056228168"],"corresponding_institution_ids":["https://openalex.org/I140062455","https://openalex.org/I4210141214","https://openalex.org/I52325"],"apc_list":{"value":1490,"currency":"GBP","value_usd":1827},"apc_paid":{"value":1490,"currency":"GBP","value_usd":1827},"fwci":5.407,"has_fulltext":true,"cited_by_count":122,"citation_normalized_percentile":{"value":0.96670015,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"9","issue":"1","first_page":"4","last_page":"4"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.6486999988555908,"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":0.6486999988555908,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.15800000727176666,"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":0.03759999945759773,"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/computer-science","display_name":"Computer science","score":0.806315541267395},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.780741810798645},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.6158549785614014},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.4994523525238037},{"id":"https://openalex.org/keywords/consistency","display_name":"Consistency (knowledge bases)","score":0.4993419647216797},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.45853716135025024},{"id":"https://openalex.org/keywords/relevance","display_name":"Relevance (law)","score":0.4578707218170166},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.42482835054397583},{"id":"https://openalex.org/keywords/suite","display_name":"Suite","score":0.41207262873649597},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.24355143308639526},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.09984093904495239}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.806315541267395},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.780741810798645},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.6158549785614014},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.4994523525238037},{"id":"https://openalex.org/C2776436953","wikidata":"https://www.wikidata.org/wiki/Q5163215","display_name":"Consistency (knowledge bases)","level":2,"score":0.4993419647216797},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.45853716135025024},{"id":"https://openalex.org/C158154518","wikidata":"https://www.wikidata.org/wiki/Q7310970","display_name":"Relevance (law)","level":2,"score":0.4578707218170166},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.42482835054397583},{"id":"https://openalex.org/C79581498","wikidata":"https://www.wikidata.org/wiki/Q1367530","display_name":"Suite","level":2,"score":0.41207262873649597},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.24355143308639526},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.09984093904495239},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C95457728","wikidata":"https://www.wikidata.org/wiki/Q309","display_name":"History","level":0,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C166957645","wikidata":"https://www.wikidata.org/wiki/Q23498","display_name":"Archaeology","level":1,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","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}],"mesh":[],"locations_count":6,"locations":[{"id":"doi:10.1186/1748-7188-9-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1748-7188-9-4","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/1748-7188-9-4","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"Algorithms for Molecular Biology","raw_type":"journal-article"},{"id":"pmid:24602402","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24602402","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":"Algorithms for molecular biology : AMB","raw_type":null},{"id":"pmh:oai:www.arca.fiocruz.br:icict/9427","is_oa":true,"landing_page_url":"https://www.arca.fiocruz.br/handle/icict/9427","pdf_url":null,"source":{"id":"https://openalex.org/S4306402641","display_name":"LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Cient\u00edficas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4383465926","host_organization_name":"LA Referencia","host_organization_lineage":["https://openalex.org/I4383465926"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"reponame:Reposit\u00f3rio Institucional da FIOCRUZ (ARCA)","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:arca.fiocruz.br:icict/9427","is_oa":true,"landing_page_url":"https://arca.fiocruz.br/handle/icict/9427","pdf_url":null,"source":{"id":"https://openalex.org/S7407055450","display_name":"Arca - Reposit\u00f3rio Institucional da Fiocruz","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"journal article"},{"id":"pmh:oai:europepmc.org:2993764","is_oa":true,"landing_page_url":"http://europepmc.org/articles/PMC4015676","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":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:4015676","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4015676","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":"Algorithms Mol Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1748-7188-9-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1748-7188-9-4","pdf_url":"https://almob.biomedcentral.com/counter/pdf/10.1186/1748-7188-9-4","source":{"id":"https://openalex.org/S205663195","display_name":"Algorithms for Molecular Biology","issn_l":"1748-7188","issn":["1748-7188"],"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":"Algorithms for Molecular Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","score":0.4000000059604645,"display_name":"Industry, innovation and infrastructure"}],"awards":[{"id":"https://openalex.org/G1829937069","display_name":null,"funder_award_id":"TW007012","funder_id":"https://openalex.org/F4320337356","funder_display_name":"Fogarty International Center"},{"id":"https://openalex.org/G3354112671","display_name":null,"funder_award_id":"2010-7","funder_id":"https://openalex.org/F4320322025","funder_display_name":"Conselho Nacional de Desenvolvimento Cient\u00edfico e Tecnol\u00f3gico"},{"id":"https://openalex.org/G3566165748","display_name":null,"funder_award_id":"PPM-00439-10","funder_id":"https://openalex.org/F4320322980","funder_display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de Minas Gerais"}],"funders":[{"id":"https://openalex.org/F4320322025","display_name":"Conselho Nacional de Desenvolvimento Cient\u00edfico e Tecnol\u00f3gico","ror":"https://ror.org/03swz6y49"},{"id":"https://openalex.org/F4320322980","display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de Minas Gerais","ror":"https://ror.org/00nc55f03"},{"id":"https://openalex.org/F4320323917","display_name":"Funda\u00e7\u00e3o Oswaldo Cruz","ror":"https://ror.org/04jhswv08"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337356","display_name":"Fogarty International Center","ror":"https://ror.org/02xey9a22"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2118716355.pdf","grobid_xml":"https://content.openalex.org/works/W2118716355.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W290667870","https://openalex.org/W1519266993","https://openalex.org/W1775447850","https://openalex.org/W1969153299","https://openalex.org/W1991319607","https://openalex.org/W2030779556","https://openalex.org/W2043046527","https://openalex.org/W2074231493","https://openalex.org/W2074774389","https://openalex.org/W2101418959","https://openalex.org/W2102502076","https://openalex.org/W2106882534","https://openalex.org/W2108215151","https://openalex.org/W2115394533","https://openalex.org/W2119362018","https://openalex.org/W2121691652","https://openalex.org/W2126332379","https://openalex.org/W2127322768","https://openalex.org/W2127774996","https://openalex.org/W2136570298","https://openalex.org/W2140872496","https://openalex.org/W2141411672","https://openalex.org/W2141747524","https://openalex.org/W2142113273","https://openalex.org/W2143357251","https://openalex.org/W2144362290","https://openalex.org/W2148311769"],"related_works":["https://openalex.org/W2083794993","https://openalex.org/W4379115841","https://openalex.org/W1511772879","https://openalex.org/W3170750609","https://openalex.org/W2979471250","https://openalex.org/W2127898439","https://openalex.org/W2186315912","https://openalex.org/W2098397451","https://openalex.org/W2248125223","https://openalex.org/W3195664246"],"abstract_inverted_index":{"BACKGROUND:":[0],"Multiple":[1],"sequence":[2,272],"alignment":[3,32,82,124,141],"(MSA)":[4],"is":[5,70,220],"an":[6],"extremely":[7],"useful":[8],"tool":[9],"for":[10,23,65,267,290,310],"molecular":[11],"and":[12,15,20,41,62,84,102,119,127,155,158,168,184,207,213,226,232,235,262,275,283],"evolutionary":[13],"biology":[14],"there":[16],"are":[17,223,264,287,303],"several":[18],"programs":[19,180,189,219,258,319],"algorithms":[21],"available":[22],"this":[24],"purpose.":[25],"Although":[26],"previous":[27],"studies":[28],"have":[29,44],"compared":[30,99],"the":[31,50,74,93,122,129,145,153,178,187,202,238,243,252,297],"accuracy":[33,83,101,269],"of":[34,53,76,92,104,131,140,170,217,270,278,308],"different":[35],"MSA":[36,96,107],"programs,":[37,108,240],"their":[38],"computational":[39,85,159],"time":[40,169],"memory":[42,166,246],"usage":[43,167],"not":[45],"been":[46],"systematically":[47],"evaluated.":[48],"Given":[49],"unprecedented":[51],"amount":[52],"data":[54,67],"produced":[55],"by":[56,151,163,317],"next":[57],"generation":[58],"deep":[59],"sequencing":[60],"platforms,":[61],"increasing":[63],"demand":[64],"large-scale":[66],"analysis,":[68],"it":[69],"imperative":[71],"to":[72],"optimize":[73],"application":[75],"software.":[77],"Therefore,":[78],"a":[79,89,321],"balance":[80],"between":[81],"cost":[86,103],"has":[87],"become":[88],"critical":[90],"indicator":[91],"most":[94],"suitable":[95],"program.":[97,248],"We":[98],"both":[100],"nine":[105],"popular":[106],"namely":[109],"CLUSTALW,":[110,230],"CLUSTAL":[111,209],"OMEGA,":[112],"DIALIGN-TX,":[113,231],"MAFFT,":[114],"MUSCLE,":[115],"POA,":[116,229],"Probalign,":[117,205],"Probcons":[118,212],"T-Coffee,":[120,182,260],"against":[121],"benchmark":[123],"dataset":[125],"BAliBASE":[126,203,298],"discuss":[128],"relevance":[130],"some":[132],"implementations":[133],"embedded":[134],"in":[135,190,201,296,320],"each":[136],"program's":[137],"algorithm.":[138],"Accuracy":[139],"was":[142],"calculated":[143],"with":[144,194],"two":[146],"standard":[147],"scoring":[148],"functions":[149],"provided":[150],"BAliBASE,":[152],"sum-of-pairs":[154],"total-column":[156],"scores,":[157],"costs":[160],"were":[161,199,237],"determined":[162],"collecting":[164],"peak":[165],"execution.":[171],"RESULTS:":[172],"Our":[173],"results":[174,253],"indicate":[175],"that":[176,221],"mostly":[177],"consistency-based":[179],"Probcons,":[181,259],"Probalign":[183,261],"MAFFT":[185,206,263,279],"outperformed":[186,211],"other":[188],"accuracy.":[191],"Whenever":[192],"sequences":[193],"large":[195],"N/C":[196],"terminal":[197],"extensions":[198],"present":[200],"suite,":[204,299],"also":[208],"OMEGA":[210],"T-Coffee.":[214],"The":[215],"drawback":[216],"these":[218],"they":[222],"more":[224,318],"memory-greedy":[225],"slower":[227],"than":[228,293],"MUSCLE.":[233],"CLUSTALW":[234,242],"MUSCLE":[236],"fastest":[239],"being":[241],"least":[244],"RAM":[245],"demanding":[247],"CONCLUSIONS:":[249],"Based":[250],"on":[251],"presented":[254],"herein,":[255],"all":[256],"four":[257],"well":[265],"recommended":[266],"better":[268],"multiple":[271],"alignments.":[273],"T-Coffee":[274],"recent":[276],"versions":[277],"can":[280],"deliver":[281],"faster":[282],"reliable":[284],"alignments,":[285],"which":[286,324],"specially":[288],"suited":[289],"larger":[291],"datasets":[292],"those":[294],"encountered":[295],"if":[300],"multi-core":[301,311],"computers":[302,312],"available.":[304],"In":[305],"fact,":[306],"parallelization":[307],"alignments":[309],"should":[313],"probably":[314],"be":[315],"addressed":[316],"near":[322],"future,":[323],"will":[325],"certainly":[326],"improve":[327],"performance":[328],"significantly.":[329]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":9},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":11},{"year":2021,"cited_by_count":21},{"year":2020,"cited_by_count":10},{"year":2019,"cited_by_count":10},{"year":2018,"cited_by_count":8},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":12},{"year":2015,"cited_by_count":12},{"year":2014,"cited_by_count":7}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}
