{"id":"https://openalex.org/W2083910508","doi":"https://doi.org/10.1109/icacci.2013.6637352","title":"Protein multiple sequence alignment based on secondary structure similarity","display_name":"Protein multiple sequence alignment based on secondary structure similarity","publication_year":2013,"publication_date":"2013-08-01","ids":{"openalex":"https://openalex.org/W2083910508","doi":"https://doi.org/10.1109/icacci.2013.6637352","mag":"2083910508"},"language":"en","primary_location":{"is_oa":false,"landing_page_url":"https://doi.org/10.1109/icacci.2013.6637352","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},"type":"article","type_crossref":"proceedings-article","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/A5029138242","display_name":"Sarvenaz Hamidi","orcid":null},"institutions":[{"id":"https://openalex.org/I86958956","display_name":"Ferdowsi University of Mashhad","ror":"https://ror.org/00g6ka752","country_code":"IR","type":"funder","lineage":["https://openalex.org/I86958956"]}],"countries":["IR"],"is_corresponding":false,"raw_author_name":"Sarvenaz Hamidi","raw_affiliation_strings":["Dept of Computer Engineering, Ferdowsi University of Mashhad, Mashhad, Iran"],"affiliations":[{"raw_affiliation_string":"Dept of Computer Engineering, Ferdowsi University of Mashhad, Mashhad, Iran","institution_ids":["https://openalex.org/I86958956"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000670364","display_name":"Mahmoud Naghibzadeh","orcid":null},"institutions":[{"id":"https://openalex.org/I86958956","display_name":"Ferdowsi University of Mashhad","ror":"https://ror.org/00g6ka752","country_code":"IR","type":"funder","lineage":["https://openalex.org/I86958956"]}],"countries":["IR"],"is_corresponding":false,"raw_author_name":"Mahmoud Naghibzadeh","raw_affiliation_strings":["Dept of Computer Engineering, Ferdowsi University of Mashhad, Mashhad, Iran"],"affiliations":[{"raw_affiliation_string":"Dept of Computer Engineering, Ferdowsi University of Mashhad, Mashhad, Iran","institution_ids":["https://openalex.org/I86958956"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5002253076","display_name":"Javad Sadri","orcid":"https://orcid.org/0000-0002-1383-1204"},"institutions":[{"id":"https://openalex.org/I97626857","display_name":"University of Birjand","ror":"https://ror.org/03g4hym73","country_code":"IR","type":"funder","lineage":["https://openalex.org/I97626857"]}],"countries":["IR"],"is_corresponding":false,"raw_author_name":"Javad Sadri","raw_affiliation_strings":["Department of Computer Engineering, University of Birjand, Birjand, Iran#TAB#"],"affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, University of Birjand, Birjand, Iran#TAB#","institution_ids":["https://openalex.org/I97626857"]}]}],"institution_assertions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":2.436,"has_fulltext":true,"fulltext_origin":"ngrams","cited_by_count":13,"citation_normalized_percentile":{"value":0.810911,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":87,"max":88},"biblio":{"volume":null,"issue":null,"first_page":"1224","last_page":"1229"},"is_retracted":false,"is_paratext":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995,"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":0.9995,"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":0.9929,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9779,"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/alignment-free-sequence-analysis","display_name":"Alignment-free sequence analysis","score":0.7685269},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.7603884},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.6698729},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.60899585},{"id":"https://openalex.org/keywords/structural-alignment","display_name":"Structural alignment","score":0.60097325},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.493636},{"id":"https://openalex.org/keywords/protein-tertiary-structure","display_name":"Protein tertiary structure","score":0.4899749},{"id":"https://openalex.org/keywords/protein-sequencing","display_name":"Protein sequencing","score":0.4404265}],"concepts":[{"id":"https://openalex.org/C180384323","wikidata":"https://www.wikidata.org/wiki/Q16335137","display_name":"Alignment-free sequence analysis","level":5,"score":0.7685269},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.7603884},{"id":"https://openalex.org/C62614982","wikidata":"https://www.wikidata.org/wiki/Q904984","display_name":"Protein secondary structure","level":2,"score":0.68484867},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.6698729},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.6454587},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.62201387},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.60899585},{"id":"https://openalex.org/C4668613","wikidata":"https://www.wikidata.org/wiki/Q4116110","display_name":"Structural alignment","level":5,"score":0.60097325},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.5584095},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.493636},{"id":"https://openalex.org/C75599170","wikidata":"https://www.wikidata.org/wiki/Q898483","display_name":"Protein tertiary structure","level":2,"score":0.4899749},{"id":"https://openalex.org/C10010492","wikidata":"https://www.wikidata.org/wiki/Q3142557","display_name":"Protein sequencing","level":4,"score":0.4404265},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.43648717},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.42537048},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.41511023},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.3918938},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.38892668},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.36125517},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.33896592},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21828249},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.21494186},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.18337345},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.13011378},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1206848},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.07498011},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","level":1,"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/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"is_oa":false,"landing_page_url":"https://doi.org/10.1109/icacci.2013.6637352","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false}],"best_oa_location":null,"sustainable_development_goals":[],"grants":[],"datasets":[],"versions":[],"referenced_works_count":29,"referenced_works":["https://openalex.org/W1505260732","https://openalex.org/W1527979595","https://openalex.org/W1969153299","https://openalex.org/W1991133427","https://openalex.org/W2004575181","https://openalex.org/W2011154456","https://openalex.org/W2044164898","https://openalex.org/W2074231493","https://openalex.org/W2100827887","https://openalex.org/W2101418959","https://openalex.org/W2102941368","https://openalex.org/W2106882534","https://openalex.org/W2108642468","https://openalex.org/W2109607376","https://openalex.org/W2120866529","https://openalex.org/W2121691652","https://openalex.org/W2127122014","https://openalex.org/W2127774996","https://openalex.org/W2128020796","https://openalex.org/W2130060890","https://openalex.org/W2132926880","https://openalex.org/W2136570298","https://openalex.org/W2140872496","https://openalex.org/W2141411672","https://openalex.org/W2144362290","https://openalex.org/W2149492307","https://openalex.org/W2166718648","https://openalex.org/W2169223021","https://openalex.org/W2169602699"],"related_works":["https://openalex.org/W65850283","https://openalex.org/W2468116983","https://openalex.org/W2158700816","https://openalex.org/W2141411672","https://openalex.org/W2133116680","https://openalex.org/W2111937814","https://openalex.org/W2051969447","https://openalex.org/W2029514038","https://openalex.org/W187239587","https://openalex.org/W1482324242"],"abstract_inverted_index":{"Protein":[0],"multiple":[1,45],"sequence":[2,46],"alignment":[3,47,102,116],"is":[4,12,49,74],"a":[5,69],"fundamental":[6],"task":[7],"in":[8,17,44,92,135],"bioinformatics.":[9],"Its":[10],"importance":[11],"due":[13],"to":[14,64,84,118,127,146],"its":[15],"application":[16],"the":[18,21,26,41,106,115,129],"estimation":[19],"of":[20,25,104,137],"phylogeny":[22],"tree,":[23],"prediction":[24,33],"secondary":[27,71,86],"and":[28,34,53,56,89,139],"tertiary":[29],"protein":[30,38],"structure,":[31],"function":[32],"finding":[35],"motifs":[36],"among":[37],"sequences.":[39],"Obtaining":[40],"best":[42],"solution":[43],"(MSA)":[48],"an":[50],"NP-hard":[51],"problem":[52],"whose":[54],"speed":[55],"accuracy":[57],"researchers":[58],"have":[59],"spent":[60],"three":[61],"decades":[62],"trying":[63],"improve.":[65],"In":[66],"this":[67,112],"paper,":[68],"novel":[70],"structure-based":[72],"approach":[73],"presented.":[75],"At":[76,100],"first,":[77],"sequences":[78,91],"are":[79,95,108,133,144],"divided":[80],"into":[81],"groups":[82,107],"according":[83],"their":[85],"structure":[87],"similarities":[88],"then":[90],"each":[93,98],"group":[94],"aligned":[96,109],"with":[97],"other.":[99],"last,":[101],"results":[103,132,143],"all":[105],"together.":[110],"Using":[111],"method":[113],"enhances":[114],"quality":[117],"some":[119,147],"extent.":[120],"A":[121],"multi-threaded":[122],"design":[123],"program":[124],"was":[125],"developed":[126],"increase":[128],"speed.":[130],"Experimental":[131],"analyzed":[134],"terms":[136],"qualities":[138],"execution":[140],"times.":[141],"The":[142],"compared":[145],"commonly":[148],"used":[149],"MSA":[150],"tools.":[151]},"abstract_inverted_index_v3":null,"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W2083910508","counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":5}],"updated_date":"2025-03-18T22:16:53.001193","created_date":"2016-06-24"}