{"id":"https://openalex.org/W2783918938","doi":"https://doi.org/10.1109/ic3ina.2017.8251754","title":"GPU-accelerated protein sequence alignment for Jamu prediction","display_name":"GPU-accelerated protein sequence alignment for Jamu prediction","publication_year":2017,"publication_date":"2017-10-01","ids":{"openalex":"https://openalex.org/W2783918938","doi":"https://doi.org/10.1109/ic3ina.2017.8251754","mag":"2783918938"},"language":"en","primary_location":{"id":"doi:10.1109/ic3ina.2017.8251754","is_oa":false,"landing_page_url":"https://doi.org/10.1109/ic3ina.2017.8251754","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2017 International Conference on Computer, Control, Informatics and its Applications (IC3INA)","raw_type":"proceedings-article"},"type":"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/A5084613690","display_name":"Syam Budi Iryanto","orcid":"https://orcid.org/0000-0002-4904-4595"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Syam B. Iryanto","raw_affiliation_strings":["Institut Pertanian Bogor, Bogor, Jawa Barat, ID"],"affiliations":[{"raw_affiliation_string":"Institut Pertanian Bogor, Bogor, Jawa Barat, ID","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075302300","display_name":"Wisnu Ananta Kusuma","orcid":"https://orcid.org/0000-0002-3682-244X"},"institutions":[{"id":"https://openalex.org/I21881038","display_name":"IPB University","ror":"https://ror.org/05smgpd89","country_code":"ID","type":"education","lineage":["https://openalex.org/I21881038"]}],"countries":["ID"],"is_corresponding":false,"raw_author_name":"Wisnu A. Kusuma","raw_affiliation_strings":["Departement of Computer Sciences, Bogor Agricultural University, Indonesia"],"affiliations":[{"raw_affiliation_string":"Departement of Computer Sciences, Bogor Agricultural University, Indonesia","institution_ids":["https://openalex.org/I21881038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006429157","display_name":"Rifki Sadikin","orcid":"https://orcid.org/0000-0002-1947-5239"},"institutions":[{"id":"https://openalex.org/I19128659","display_name":"Indonesian Institute of Sciences","ror":"https://ror.org/03d7c1451","country_code":"ID","type":"facility","lineage":["https://openalex.org/I19128659"]}],"countries":["ID"],"is_corresponding":false,"raw_author_name":"Rifki Sadikin","raw_affiliation_strings":["High Performance Computing Laboratory, Indonesian Institute of Sciences"],"affiliations":[{"raw_affiliation_string":"High Performance Computing Laboratory, Indonesian Institute of Sciences","institution_ids":["https://openalex.org/I19128659"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5014213251","display_name":"I Wayan Aditya Swardiana","orcid":null},"institutions":[{"id":"https://openalex.org/I19128659","display_name":"Indonesian Institute of Sciences","ror":"https://ror.org/03d7c1451","country_code":"ID","type":"facility","lineage":["https://openalex.org/I19128659"]}],"countries":["ID"],"is_corresponding":false,"raw_author_name":"I Wayan A. Swardiana","raw_affiliation_strings":["High Performance Computing Laboratory, Indonesian Institute of Sciences"],"affiliations":[{"raw_affiliation_string":"High Performance Computing Laboratory, Indonesian Institute of Sciences","institution_ids":["https://openalex.org/I19128659"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5084613690"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.15894293,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"39","issue":null,"first_page":"132","last_page":"136"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9970999956130981,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9970999956130981,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9925000071525574,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9794999957084656,"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/speedup","display_name":"Speedup","score":0.9586896300315857},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8307904601097107},{"id":"https://openalex.org/keywords/cuda","display_name":"CUDA","score":0.8284925222396851},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.6964833736419678},{"id":"https://openalex.org/keywords/smith\u2013waterman-algorithm","display_name":"Smith\u2013Waterman algorithm","score":0.6660491228103638},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.5099514722824097},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.5079849362373352},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.5016732215881348},{"id":"https://openalex.org/keywords/general-purpose-computing-on-graphics-processing-units","display_name":"General-purpose computing on graphics processing units","score":0.4846377968788147},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.46439605951309204},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.45337507128715515},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4460170269012451},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.3530395030975342},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3304779529571533},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2442791759967804},{"id":"https://openalex.org/keywords/graphics","display_name":"Graphics","score":0.18114504218101501},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.09754812717437744},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.08881211280822754}],"concepts":[{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.9586896300315857},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8307904601097107},{"id":"https://openalex.org/C2778119891","wikidata":"https://www.wikidata.org/wiki/Q477690","display_name":"CUDA","level":2,"score":0.8284925222396851},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.6964833736419678},{"id":"https://openalex.org/C72802188","wikidata":"https://www.wikidata.org/wiki/Q1683352","display_name":"Smith\u2013Waterman algorithm","level":5,"score":0.6660491228103638},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.5099514722824097},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.5079849362373352},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.5016732215881348},{"id":"https://openalex.org/C50630238","wikidata":"https://www.wikidata.org/wiki/Q971505","display_name":"General-purpose computing on graphics processing units","level":3,"score":0.4846377968788147},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.46439605951309204},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.45337507128715515},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4460170269012451},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.3530395030975342},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3304779529571533},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2442791759967804},{"id":"https://openalex.org/C21442007","wikidata":"https://www.wikidata.org/wiki/Q1027879","display_name":"Graphics","level":2,"score":0.18114504218101501},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.09754812717437744},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.08881211280822754},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"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/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","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},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/ic3ina.2017.8251754","is_oa":false,"landing_page_url":"https://doi.org/10.1109/ic3ina.2017.8251754","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2017 International Conference on Computer, Control, Informatics and its Applications (IC3INA)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.5299999713897705,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320325961","display_name":"Lembaga Ilmu Pengetahuan Indonesia","ror":"https://ror.org/03d7c1451"},{"id":"https://openalex.org/F4320334253","display_name":"Research Center for Informatics, Czech Technical University in Prague","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":12,"referenced_works":["https://openalex.org/W1993043464","https://openalex.org/W2055043387","https://openalex.org/W2071116416","https://openalex.org/W2076545803","https://openalex.org/W2102523813","https://openalex.org/W2135326109","https://openalex.org/W2135621733","https://openalex.org/W2142658776","https://openalex.org/W2155518645","https://openalex.org/W2288728023","https://openalex.org/W2519021971","https://openalex.org/W4236236547"],"related_works":["https://openalex.org/W2948014085","https://openalex.org/W2103737249","https://openalex.org/W2051969447","https://openalex.org/W2004215917","https://openalex.org/W1486249959","https://openalex.org/W2135668486","https://openalex.org/W2468116983","https://openalex.org/W1974956921","https://openalex.org/W2146180248","https://openalex.org/W2111937814"],"abstract_inverted_index":{"In-silico":[0],"analysis":[1,35],"is":[2,71,85],"an":[3,15],"important":[4],"step":[5],"for":[6,32,48],"discovering":[7],"new":[8],"drugs.":[9],"In":[10],"this":[11],"work,":[12],"we":[13],"propose":[14],"implementation":[16],"of":[17,28,67],"GPU-accelerated":[18],"Smith-Waterman":[19],"local":[20],"alignment":[21],"algorithm":[22,70],"to":[23],"compute":[24],"the":[25,49,57,75,79],"similarity":[26],"score":[27],"protein":[29],"that":[30,42],"used":[31],"drug-":[33],"target":[34],"on":[36,78],"Ijah":[37],"Webserver,":[38],"a":[39],"web-based":[40],"tool":[41],"provides":[43],"searching":[44],"and":[45,53],"predicting":[46],"services":[47],"interaction":[50],"between":[51],"plants":[52],"diseases.":[54],"We":[55],"implement":[56],"proposed":[58,69,83],"method":[59,84],"in":[60],"NVIDIA":[61],"CUDA":[62],"based":[63],"GPU's.":[64],"Performance":[65],"evaluation":[66],"parallel":[68],"measured":[72],"by":[73],"calculating":[74],"speedup.":[76,93],"Based":[77],"performance":[80],"evaluation,":[81],"our":[82],"faster":[86],"than":[87],"CPU":[88],"codes":[89],"with":[90],"3.42":[91],"times":[92]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
