{"id":"https://openalex.org/W2999790378","doi":"https://doi.org/10.1109/bibe.2019.00037","title":"Multithreaded Parallel Sequence Alignment Based on Needleman-Wunsch Algorithm","display_name":"Multithreaded Parallel Sequence Alignment Based on Needleman-Wunsch Algorithm","publication_year":2019,"publication_date":"2019-10-01","ids":{"openalex":"https://openalex.org/W2999790378","doi":"https://doi.org/10.1109/bibe.2019.00037","mag":"2999790378"},"language":"en","primary_location":{"id":"doi:10.1109/bibe.2019.00037","doi":"https://doi.org/10.1109/bibe.2019.00037","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibe.2019.00037","pdf_url":null,"source":{"id":"https://openalex.org/S4393918218","display_name":"IEEE International Conference on Bioinformatics and Bioengineering (BIBE)","issn_l":"2159-5410","issn":["2159-5410"],"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":["norway-1"],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2019 IEEE 19th International Conference on Bioinformatics and Bioengineering (BIBE)","raw_type":"proceedings-article"},"volume":null,"type":"conference-paper","is_traditional":true,"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/A5021119403","display_name":"V\u0435sk\u0430 G\u0430nch\u0435v\u0430","orcid":"https://orcid.org/0000-0001-6334-5573","observed_orcids":["https://orcid.org/0000-0001-6334-5573"]},"institutions":[{"id":"https://openalex.org/I31151848","display_name":"Technical University of Sofia","ror":"https://ror.org/052prhs50","country_code":"BG","type":"education","lineage":["https://openalex.org/I31151848"]}],"countries":["BG"],"is_corresponding":false,"raw_author_name":"Veska Gancheva","raw_affiliation_strings":["Department of Programming and Computer Technology, Technical University of Sofia, Sofia, Bulgaria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Programming and Computer Technology, Technical University of Sofia, Sofia, Bulgaria","institution_ids":["https://openalex.org/I31151848"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101320164","display_name":"Ivaylo Georgiev","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I4210107381","display_name":"Stephan Angeloff Institute of Microbiology","ror":"https://ror.org/01q8rrk81","country_code":"BG","type":"facility","lineage":["https://openalex.org/I24768866","https://openalex.org/I4210107381"]}],"countries":["BG"],"is_corresponding":false,"raw_author_name":"Ivaylo Georgiev","raw_affiliation_strings":["The Stephan Angeloff Institute of Microbiology, Sofia, Bulgaria"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"The Stephan Angeloff Institute of Microbiology, Sofia, Bulgaria","institution_ids":["https://openalex.org/I4210107381"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.8076,"has_fulltext":false,"cited_by_count":10,"citation_normalized_percentile":{"value":0.68213058,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":87,"max":95},"biblio":{"volume":"2019","issue":null,"first_page":"165","last_page":"169"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10054","display_name":"Parallel Computing and Optimization Techniques","score":0.864300012588501,"subfield":{"id":"https://openalex.org/subfields/1708","display_name":"Hardware and Architecture"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10054","display_name":"Parallel Computing and Optimization Techniques","score":0.864300012588501,"subfield":{"id":"https://openalex.org/subfields/1708","display_name":"Hardware and Architecture"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.09969999641180038,"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":0.016699999570846558,"subfield":{"id":"https://openalex.org/subfields/2614","display_name":"Theoretical Computer Science"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"sequence alignment","score":0.871999979019165},{"id":"https://openalex.org/keywords/needleman-wunsch-algorithm","display_name":"Needleman-Wunsch algorithm","score":1.0},{"id":"https://openalex.org/keywords/openmp","display_name":"OpenMP","score":0.8650000095367432},{"id":"https://openalex.org/keywords/parallel-computational-models","display_name":"parallel computational models","score":0.7120000123977661},{"id":"https://openalex.org/keywords/dna-sequence-alignment","display_name":"DNA sequence alignment","score":0.6129999756813049},{"id":"https://openalex.org/keywords/protein-sequence-alignment","display_name":"protein sequence alignment","score":0.9940000176429749},{"id":"https://openalex.org/keywords/scalability-analysis","display_name":"scalability analysis","score":0.6480000019073486},{"id":"https://openalex.org/keywords/speedup","display_name":"speedup","score":0.7730000019073486},{"id":"https://openalex.org/keywords/execution-time","display_name":"execution time","score":0.6510000228881836}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.835443377494812},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.769275426864624},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.6268003582954407},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.6182342767715454},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.5291443467140198},{"id":"https://openalex.org/C26713055","wikidata":"https://www.wikidata.org/wiki/Q245962","display_name":"Implementation","level":2,"score":0.5276737809181213},{"id":"https://openalex.org/C201410400","wikidata":"https://www.wikidata.org/wiki/Q1064412","display_name":"Multithreading","level":3,"score":0.5223625898361206},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.4864320755004883},{"id":"https://openalex.org/C120373497","wikidata":"https://www.wikidata.org/wiki/Q1087987","display_name":"Parallel algorithm","level":2,"score":0.4804810583591461},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4612829089164734},{"id":"https://openalex.org/C2778476105","wikidata":"https://www.wikidata.org/wiki/Q628539","display_name":"Workload","level":2,"score":0.459416925907135},{"id":"https://openalex.org/C106515295","wikidata":"https://www.wikidata.org/wiki/Q26806595","display_name":"Parallel processing","level":2,"score":0.43218204379081726},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.3782590329647064},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.35088956356048584},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.32628002762794495},{"id":"https://openalex.org/C138101251","wikidata":"https://www.wikidata.org/wiki/Q213092","display_name":"Thread (computing)","level":2,"score":0.3115929365158081},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.13827964663505554},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.1297723650932312},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","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},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"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/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/bibe.2019.00037","doi":"https://doi.org/10.1109/bibe.2019.00037","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibe.2019.00037","pdf_url":null,"source":{"id":"https://openalex.org/S4393918218","display_name":"IEEE International Conference on Bioinformatics and Bioengineering (BIBE)","issn_l":"2159-5410","issn":["2159-5410"],"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":["norway-1"],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"conference"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2019 IEEE 19th International Conference on Bioinformatics and Bioengineering (BIBE)","raw_type":"proceedings-article"},{"id":"mag:3041741342","doi":null,"is_oa":false,"landing_page_url":"https://jglobal.jst.go.jp/en/detail?JGLOBAL_ID=202002224632655799","pdf_url":null,"source":{"id":"https://openalex.org/S4306512817","display_name":"IEEE Conference Proceedings","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"conference"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":"IEEE Conference Proceedings","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":12,"referenced_works":["https://openalex.org/W149631998","https://openalex.org/W629442135","https://openalex.org/W1554451661","https://openalex.org/W1592614241","https://openalex.org/W2029195137","https://openalex.org/W2055043387","https://openalex.org/W2074231493","https://openalex.org/W2080150416","https://openalex.org/W2087064593","https://openalex.org/W2749116339","https://openalex.org/W4231482928","https://openalex.org/W4238734921"],"related_works":["https://openalex.org/W3012405437","https://openalex.org/W4322013031","https://openalex.org/W2693773866","https://openalex.org/W2050304862","https://openalex.org/W2104809049","https://openalex.org/W2749116339","https://openalex.org/W2296652601","https://openalex.org/W2799242437","https://openalex.org/W2801787859","https://openalex.org/W2373173884"],"abstract_inverted_index":{"Biocomputing":[0],"and":[1,9,17,30,51,64,77,99,170,181,189,206],"molecular":[2],"biology":[3],"are":[4,93,183],"areas":[5],"that":[6,193],"change":[7],"knowledge":[8],"skills":[10],"for":[11,34,48,107,163],"acquisition,":[12],"storing,":[13],"management,":[14],"analysis,":[15,49],"interpretation":[16,50],"dissemination":[18],"of":[19,26,36,44,53,61,66,113,116,125,157,166,174],"biological":[20,87,108],"information.":[21],"This":[22],"requires":[23],"the":[24,37,62,83,105,114,164,194,204],"utilization":[25],"high":[27],"performance":[28,177,187],"computers":[29],"innovative":[31,45],"software":[32],"tools":[33],"management":[35],"vast":[38],"information,":[39],"as":[40,42],"well":[41],"deployment":[43],"algorithmic":[46],"techniques":[47],"prognostication":[52],"data":[54,168],"in":[55,75,86,130,201],"order":[56],"to":[57,59,94,203],"get":[58],"insight":[60],"design":[63],"validation":[65],"life-science":[67],"experiments.":[68],"Sequence":[69],"alignment":[70,118],"is":[71,128,140,146],"an":[72],"important":[73],"method":[74],"DNA":[76],"protein":[78],"analysis.":[79],"The":[80,90,142,186],"paper":[81],"describes":[82],"computational":[84,97,134],"challenges":[85,92],"sequence":[88,109,117],"processing.":[89],"great":[91],"propose":[95],"parallel":[96,100,121,144,150],"models":[98],"program":[101,123,151],"implementations":[102],"based":[103,119,136],"on":[104,120,137],"algorithms":[106],"alignment.":[110],"An":[111],"investigation":[112],"efficiency":[115],"multithreaded":[122,149],"implementation":[124,152],"Needleman-Wunsch":[126,138],"algorithm":[127,139],"presented":[129],"this":[131],"paper.":[132],"Parallel":[133,176],"model":[135,145,196],"designed.":[141],"proposed":[143],"verified":[147],"by":[148],"utilizing":[153],"OpenMP.":[154],"A":[155],"number":[156,173],"experiments":[158],"have":[159],"been":[160],"carried":[161],"out":[162],"case":[165],"various":[167,172],"sets":[169],"a":[171],"threads.":[175],"parameters":[178],"execution":[179],"time":[180],"speedup":[182],"estimated":[184],"experimentally.":[185],"estimation":[188],"scalability":[190,199],"analyses":[191],"show":[192],"suggested":[195],"has":[197],"good":[198],"both":[200],"respect":[202],"workload":[205],"machine":[207],"size.":[208]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2}],"updated_date":"2026-11-07T11:25:07.637180","created_date":"2020-01-23T00:00:00"}