{"id":"https://openalex.org/W2015646170","doi":"https://doi.org/10.1145/2488551.2488583","title":"Scalability and accuracy improvements of consistency-based multiple sequence alignment tools","display_name":"Scalability and accuracy improvements of consistency-based multiple sequence alignment tools","publication_year":2013,"publication_date":"2013-09-11","ids":{"openalex":"https://openalex.org/W2015646170","doi":"https://doi.org/10.1145/2488551.2488583","mag":"2015646170"},"language":"en","primary_location":{"id":"doi:10.1145/2488551.2488583","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2488551.2488583","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 20th European MPI Users' Group Meeting","raw_type":"proceedings-article"},"type":"conference-paper","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5061024368","display_name":"Miquel Orobitg","orcid":"https://orcid.org/0000-0002-6106-2403"},"institutions":[{"id":"https://openalex.org/I15766328","display_name":"Universitat de Lleida","ror":"https://ror.org/050c3cw24","country_code":"ES","type":"education","lineage":["https://openalex.org/I15766328"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Miquel Orobitg","raw_affiliation_strings":["Universitat de Lleida, Lleida, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitat de Lleida, Lleida, Spain","institution_ids":["https://openalex.org/I15766328"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014052384","display_name":"Jordi Llad\u00f3s","orcid":"https://orcid.org/0000-0001-9007-0085"},"institutions":[{"id":"https://openalex.org/I15766328","display_name":"Universitat de Lleida","ror":"https://ror.org/050c3cw24","country_code":"ES","type":"education","lineage":["https://openalex.org/I15766328"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jordi Llad\u00f3s","raw_affiliation_strings":["Universitat de Lleida, Lleida, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitat de Lleida, Lleida, Spain","institution_ids":["https://openalex.org/I15766328"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081297325","display_name":"Fernando Guirado","orcid":"https://orcid.org/0000-0003-1352-9555"},"institutions":[{"id":"https://openalex.org/I15766328","display_name":"Universitat de Lleida","ror":"https://ror.org/050c3cw24","country_code":"ES","type":"education","lineage":["https://openalex.org/I15766328"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Fernando Guirado","raw_affiliation_strings":["Universitat de Lleida, Lleida, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitat de Lleida, Lleida, Spain","institution_ids":["https://openalex.org/I15766328"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068472593","display_name":"Fernando Cores","orcid":"https://orcid.org/0000-0003-2910-6709"},"institutions":[{"id":"https://openalex.org/I15766328","display_name":"Universitat de Lleida","ror":"https://ror.org/050c3cw24","country_code":"ES","type":"education","lineage":["https://openalex.org/I15766328"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Fernando Cores","raw_affiliation_strings":["Universitat de Lleida, Lleida, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitat de Lleida, Lleida, Spain","institution_ids":["https://openalex.org/I15766328"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5058332830","display_name":"C\u00e9dric Notredame","orcid":"https://orcid.org/0000-0003-1461-0988"},"institutions":[{"id":"https://openalex.org/I170486558","display_name":"Universitat Pompeu Fabra","ror":"https://ror.org/04n0g0b29","country_code":"ES","type":"education","lineage":["https://openalex.org/I170486558"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Cedric Notredame","raw_affiliation_strings":["Universitat Pompeu Fabra, Barcelona, Spain","Universitat Pompeu, Fabra, Barcelona, Spain#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Universitat Pompeu Fabra, Barcelona, Spain","institution_ids":["https://openalex.org/I170486558"]},{"raw_affiliation_string":"Universitat Pompeu, Fabra, Barcelona, Spain#TAB#","institution_ids":["https://openalex.org/I170486558"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":4.1011,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.93015407,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":null,"issue":null,"first_page":"259","last_page":"264"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"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":0.9998000264167786,"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/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9653000235557556,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9578999876976013,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.890204906463623},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7633240222930908},{"id":"https://openalex.org/keywords/consistency","display_name":"Consistency (knowledge bases)","score":0.7465044260025024},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5713973641395569},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.5414524078369141},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5358312129974365},{"id":"https://openalex.org/keywords/data-consistency","display_name":"Data consistency","score":0.4460589587688446},{"id":"https://openalex.org/keywords/scale","display_name":"Scale (ratio)","score":0.4210321605205536},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.358561635017395},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.29933059215545654},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.23411035537719727},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.1419442892074585}],"concepts":[{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.890204906463623},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7633240222930908},{"id":"https://openalex.org/C2776436953","wikidata":"https://www.wikidata.org/wiki/Q5163215","display_name":"Consistency (knowledge bases)","level":2,"score":0.7465044260025024},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5713973641395569},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.5414524078369141},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5358312129974365},{"id":"https://openalex.org/C93361087","wikidata":"https://www.wikidata.org/wiki/Q4426698","display_name":"Data consistency","level":2,"score":0.4460589587688446},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.4210321605205536},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.358561635017395},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.29933059215545654},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.23411035537719727},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.1419442892074585},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","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/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","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/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2488551.2488583","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2488551.2488583","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 20th European MPI Users' Group Meeting","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.4000000059604645,"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure"}],"awards":[{"id":"https://openalex.org/G112227707","display_name":null,"funder_award_id":"LEISHDRUG project (no 223414)","funder_id":"https://openalex.org/F4320334960","funder_display_name":"Seventh Framework Programme"},{"id":"https://openalex.org/G2148729488","display_name":null,"funder_award_id":"KBBE-2A-222664","funder_id":"https://openalex.org/F4320334960","funder_display_name":"Seventh Framework Programme"}],"funders":[{"id":"https://openalex.org/F4320334960","display_name":"Seventh Framework Programme","ror":"https://ror.org/00k4n6c32"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":19,"referenced_works":["https://openalex.org/W169927615","https://openalex.org/W1519266993","https://openalex.org/W1969153299","https://openalex.org/W2001134403","https://openalex.org/W2073589460","https://openalex.org/W2106882534","https://openalex.org/W2120866529","https://openalex.org/W2121691652","https://openalex.org/W2127322768","https://openalex.org/W2127774996","https://openalex.org/W2129448726","https://openalex.org/W2138080747","https://openalex.org/W2140872496","https://openalex.org/W2144362290","https://openalex.org/W2155518645","https://openalex.org/W2168614088","https://openalex.org/W2187406058","https://openalex.org/W2709625040","https://openalex.org/W4250804996"],"related_works":["https://openalex.org/W2144839145","https://openalex.org/W2386805970","https://openalex.org/W2308026613","https://openalex.org/W2379416403","https://openalex.org/W2901600492","https://openalex.org/W2165253724","https://openalex.org/W2051969447","https://openalex.org/W1985571776","https://openalex.org/W2111937814","https://openalex.org/W2769374332"],"abstract_inverted_index":{"Multiple":[0],"sequence":[1],"alignment":[2,100],"(MSA)":[3],"is":[4],"one":[5],"of":[6,16,33,44,66,83],"the":[7,14,45,54,64,81,84,99],"most":[8],"useful":[9],"tools":[10],"in":[11],"bioinformatics.":[12],"However,":[13],"growth":[15],"sequencing":[17],"data":[18],"imposes":[19],"further":[20],"difficulties":[21],"for":[22],"aligning":[23],"it":[24,35],"with":[25,31,63],"traditional":[26],"tools.":[27],"For":[28],"large-scale":[29],"alignments":[30],"thousands":[32],"sequences":[34,95],"will":[36],"be":[37],"necessary":[38],"to":[39,90],"use":[40],"and":[41,71],"take":[42],"profit":[43],"high":[46],"performance":[47],"computing":[48],"(HPC).":[49],"This":[50],"paper,":[51],"focused":[52],"on":[53],"consistency-based":[55],"T-Coffee":[56,89],"MSA":[57],"tool,":[58],"presents":[59],"several":[60],"innovative":[61],"solutions":[62],"objective":[65],"improving":[67,98],"its":[68],"efficiency,":[69],"scalability":[70],"accuracy.":[72,101],"The":[73],"results":[74],"obtained":[75],"show":[76],"that":[77],"our":[78],"approach":[79],"doubles":[80],"speed-up":[82],"progressive":[85],"alignment,":[86],"thus":[87],"allowing":[88],"align":[91],"twice":[92],"as":[93],"many":[94],"while":[96],"also":[97]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":3}],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}
