{"id":"https://openalex.org/W2158199799","doi":"https://doi.org/10.1504/ijbra.2014.062990","title":"PMS6: a fast algorithm for motif discovery","display_name":"PMS6: a fast algorithm for motif discovery","publication_year":2014,"publication_date":"2014-01-01","ids":{"openalex":"https://openalex.org/W2158199799","doi":"https://doi.org/10.1504/ijbra.2014.062990","mag":"2158199799","pmid":"https://pubmed.ncbi.nlm.nih.gov/24989858"},"language":"en","primary_location":{"id":"doi:10.1504/ijbra.2014.062990","doi":"https://doi.org/10.1504/ijbra.2014.062990","is_oa":false,"landing_page_url":"https://doi.org/10.1504/ijbra.2014.062990","pdf_url":null,"source":{"id":"https://openalex.org/S207086575","display_name":"International Journal of Bioinformatics Research and Applications","issn_l":"1744-5485","issn":["1744-5485","1744-5493"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","doyens","jufo-1","norway-1","poland-20","russia-white-list-4"],"host_organization":"https://openalex.org/P4310317825","host_organization_name":"Inderscience Publishers","host_organization_lineage":["https://openalex.org/P4310317825"],"host_organization_lineage_names":["Inderscience Publishers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Bioinformatics Research and Applications","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"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/A5009025370","display_name":"Shibdas Bandyopadhyay","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shibdas Bandyopadhyay","raw_affiliation_strings":["Department of CISE, University of Florida, Gainesville, FL 32611, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of CISE, University of Florida, Gainesville, FL 32611, USA","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070824596","display_name":"Sartaj K. Sahni","orcid":"https://orcid.org/0000-0002-8129-1676","observed_orcids":["https://orcid.org/0000-0002-8129-1676"]},"institutions":[{"id":"https://openalex.org/I33213144","display_name":"University of Florida","ror":"https://ror.org/02y3ad647","country_code":"US","type":"education","lineage":["https://openalex.org/I33213144"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sartaj Sahni","raw_affiliation_strings":["Department of CISE, University of Florida, Gainesville, FL 32611, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of CISE, University of Florida, Gainesville, FL 32611, USA","institution_ids":["https://openalex.org/I33213144"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5034177039","display_name":"Sanguthevar Rajasekaran","orcid":"https://orcid.org/0000-0002-0137-4843","observed_orcids":["https://orcid.org/0000-0002-0137-4843"]},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sanguthevar Rajasekaran","raw_affiliation_strings":["Department of CSE, University of Connecticut, Storrs, CT 06269, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of CSE, University of Connecticut, Storrs, CT 06269, USA","institution_ids":["https://openalex.org/I140172145"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":1.3278,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.84533,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":97},"biblio":{"volume":"10","issue":"4/5","first_page":"369","last_page":"369"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9994999766349792,"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"}},"topics":[{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9994999766349792,"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"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":9.999999747378752e-05,"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/T11567","display_name":"semigroups and automata theory","score":0.0,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/motif-discovery","display_name":"motif discovery","score":0.8989999890327454},{"id":"https://openalex.org/keywords/exact-string-matching","display_name":"exact string matching","score":0.4320000112056732}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6057628393173218},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5873697400093079},{"id":"https://openalex.org/C32276052","wikidata":"https://www.wikidata.org/wiki/Q908349","display_name":"Motif (music)","level":2,"score":0.5251286029815674},{"id":"https://openalex.org/C3017489831","wikidata":"https://www.wikidata.org/wiki/Q2393193","display_name":"Running time","level":2,"score":0.4266819953918457},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.09700915217399597},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1504/ijbra.2014.062990","doi":"https://doi.org/10.1504/ijbra.2014.062990","is_oa":false,"landing_page_url":"https://doi.org/10.1504/ijbra.2014.062990","pdf_url":null,"source":{"id":"https://openalex.org/S207086575","display_name":"International Journal of Bioinformatics Research and Applications","issn_l":"1744-5485","issn":["1744-5485","1744-5493"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","doyens","jufo-1","norway-1","poland-20","russia-white-list-4"],"host_organization":"https://openalex.org/P4310317825","host_organization_name":"Inderscience Publishers","host_organization_lineage":["https://openalex.org/P4310317825"],"host_organization_lineage_names":["Inderscience Publishers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Bioinformatics Research and Applications","raw_type":"journal-article"},{"id":"pmid:24989858","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24989858","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,"listed_in":[],"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":"International journal of bioinformatics research and applications","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"sustainable_development_goals_aurora":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G8470911175","display_name":"Efficient Algorithms for Motif Search","funder_award_id":"R01LM010101","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320310009","display_name":"University of Florida","ror":"https://ror.org/02y3ad647"},{"id":"https://openalex.org/F4320310017","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":18,"referenced_works":["https://openalex.org/W1486659038","https://openalex.org/W1571755427","https://openalex.org/W1580213736","https://openalex.org/W1998300401","https://openalex.org/W2003967338","https://openalex.org/W2023863508","https://openalex.org/W2024349287","https://openalex.org/W2025567828","https://openalex.org/W2038555630","https://openalex.org/W2041754606","https://openalex.org/W2062088872","https://openalex.org/W2070310544","https://openalex.org/W2115273783","https://openalex.org/W2128091972","https://openalex.org/W2145091349","https://openalex.org/W2155976638","https://openalex.org/W2162114340","https://openalex.org/W2162665632"],"related_works":["https://openalex.org/W2098843276","https://openalex.org/W2038555630","https://openalex.org/W2782620737","https://openalex.org/W3108953676","https://openalex.org/W7113084149","https://openalex.org/W2144502702","https://openalex.org/W3024627142","https://openalex.org/W7100668044","https://openalex.org/W2115273783","https://openalex.org/W4399039433"],"abstract_inverted_index":{"We":[0],"propose":[1],"a":[2,28,59,69],"new":[3],"algorithm,":[4],"PMS6,":[5],"for":[6,51,63,73,90,98,100,119,127],"the":[7,46,64,74,109],"(l,d)-motif":[8],"discovery":[9,53],"problem":[10],"in":[11,24,54],"which":[12],"we":[13],"are":[14],"to":[15,68],"find":[16],"all":[17],"strings":[18,32],"of":[19,27,31,61,71,85],"length":[20],"l":[21],"that":[22,97],"appear":[23],"every":[25],"string":[26],"given":[29],"set":[30],"with":[33],"at":[34],"most":[35],"d":[36],"mismatches.":[37],"The":[38,87],"run":[39,110],"time":[40,89,105,111],"ratio":[41,112],"PMS5/PMS6,":[42],"where":[43],"PMS5":[44,79,99],"is":[45,92,106,114],"fastest":[47],"previously":[48],"known":[49],"algorithm":[50],"motif":[52],"large":[55],"instances,":[56],"ranges":[57],"from":[58],"high":[60,116],"2.20":[62],"(21,8)":[65],"challenge":[66,76],"instances":[67,121],"low":[70,124],"1.69":[72],"(17,6)":[75,128],"instances.":[77,102,129],"Both":[78],"and":[80,122],"PMS6":[81,91],"require":[82],"some":[83],"amount":[84],"pre-processing.":[86],"pre-processing":[88,104],"34":[93],"times":[94],"faster":[95],"than":[96],"(23,9)":[101],"When":[103],"factored":[107],"in,":[108],"PMS5/PMS6":[113],"as":[115,117,123,125],"2.75":[118],"(13,4)":[120],"1.95":[126]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2014,"cited_by_count":1}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2016-06-24T00:00:00"}
