{"id":"https://openalex.org/W2108959557","doi":"https://doi.org/10.1093/bioinformatics/btn282","title":"Efficient representation and <i>P</i>-value computation for high-order Markov motifs","display_name":"Efficient representation and <i>P</i>-value computation for high-order Markov motifs","publication_year":2008,"publication_date":"2008-08-09","ids":{"openalex":"https://openalex.org/W2108959557","doi":"https://doi.org/10.1093/bioinformatics/btn282","mag":"2108959557","pmid":"https://pubmed.ncbi.nlm.nih.gov/18689819"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btn282","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn282","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/16/i160/49051605/bioinformatics_24_16_i160.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/24/16/i160/49051605/bioinformatics_24_16_i160.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5111847748","display_name":"Paulo G. S. da Fonseca","orcid":null},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I25112270","display_name":"Universidade Federal de Pernambuco","ror":"https://ror.org/047908t24","country_code":"BR","type":"education","lineage":["https://openalex.org/I25112270"]},{"id":"https://openalex.org/I4210135640","display_name":"Laboratoire de Biom\u00e9trie et Biologie Evolutive","ror":"https://ror.org/03skt0t88","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I4210100596","https://openalex.org/I4210104684","https://openalex.org/I4210107625","https://openalex.org/I4210135640"]}],"countries":["BR","FR"],"is_corresponding":true,"raw_author_name":"Paulo G. S. da Fonseca","raw_affiliation_strings":["1 Centro de Inform\u00e1tica, Universidade Federal de Pernambuco, 50732-970, Recife, Brazil and 2Universit\u00e9 de Lyon, F-69000, Lyon; Universit\u00e9 Lyon 1; INRIA Rh\u00f4ne-Alpes; CNRS, UMR5558, Laboratoire de Biom\u00e9trie et Biologie Evolutive, F-69622, Villeurbanne, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Centro de Inform\u00e1tica, Universidade Federal de Pernambuco, 50732-970, Recife, Brazil and 2Universit\u00e9 de Lyon, F-69000, Lyon; Universit\u00e9 Lyon 1; INRIA Rh\u00f4ne-Alpes; CNRS, UMR5558, Laboratoire de Biom\u00e9trie et Biologie Evolutive, F-69622, Villeurbanne, France","institution_ids":["https://openalex.org/I4210135640","https://openalex.org/I100532134","https://openalex.org/I25112270","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049869228","display_name":"Katia S. Guimar\u00e3es","orcid":null},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I25112270","display_name":"Universidade Federal de Pernambuco","ror":"https://ror.org/047908t24","country_code":"BR","type":"education","lineage":["https://openalex.org/I25112270"]},{"id":"https://openalex.org/I4210135640","display_name":"Laboratoire de Biom\u00e9trie et Biologie Evolutive","ror":"https://ror.org/03skt0t88","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I4210100596","https://openalex.org/I4210104684","https://openalex.org/I4210107625","https://openalex.org/I4210135640"]}],"countries":["BR","FR"],"is_corresponding":false,"raw_author_name":"Katia S. Guimar\u00e3es","raw_affiliation_strings":["1 Centro de Inform\u00e1tica, Universidade Federal de Pernambuco, 50732-970, Recife, Brazil and 2Universit\u00e9 de Lyon, F-69000, Lyon; Universit\u00e9 Lyon 1; INRIA Rh\u00f4ne-Alpes; CNRS, UMR5558, Laboratoire de Biom\u00e9trie et Biologie Evolutive, F-69622, Villeurbanne, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Centro de Inform\u00e1tica, Universidade Federal de Pernambuco, 50732-970, Recife, Brazil and 2Universit\u00e9 de Lyon, F-69000, Lyon; Universit\u00e9 Lyon 1; INRIA Rh\u00f4ne-Alpes; CNRS, UMR5558, Laboratoire de Biom\u00e9trie et Biologie Evolutive, F-69622, Villeurbanne, France","institution_ids":["https://openalex.org/I4210135640","https://openalex.org/I100532134","https://openalex.org/I25112270","https://openalex.org/I1294671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5110204102","display_name":"Marie-France Sagot","orcid":null},"institutions":[{"id":"https://openalex.org/I100532134","display_name":"Universit\u00e9 Claude Bernard Lyon 1","ror":"https://ror.org/029brtt94","country_code":"FR","type":"education","lineage":["https://openalex.org/I100532134","https://openalex.org/I203339264"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I25112270","display_name":"Universidade Federal de Pernambuco","ror":"https://ror.org/047908t24","country_code":"BR","type":"education","lineage":["https://openalex.org/I25112270"]},{"id":"https://openalex.org/I4210135640","display_name":"Laboratoire de Biom\u00e9trie et Biologie Evolutive","ror":"https://ror.org/03skt0t88","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I203339264","https://openalex.org/I4210100596","https://openalex.org/I4210104684","https://openalex.org/I4210107625","https://openalex.org/I4210135640"]}],"countries":["BR","FR"],"is_corresponding":false,"raw_author_name":"Marie-France Sagot","raw_affiliation_strings":["1 Centro de Inform\u00e1tica, Universidade Federal de Pernambuco, 50732-970, Recife, Brazil and 2Universit\u00e9 de Lyon, F-69000, Lyon; Universit\u00e9 Lyon 1; INRIA Rh\u00f4ne-Alpes; CNRS, UMR5558, Laboratoire de Biom\u00e9trie et Biologie Evolutive, F-69622, Villeurbanne, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Centro de Inform\u00e1tica, Universidade Federal de Pernambuco, 50732-970, Recife, Brazil and 2Universit\u00e9 de Lyon, F-69000, Lyon; Universit\u00e9 Lyon 1; INRIA Rh\u00f4ne-Alpes; CNRS, UMR5558, Laboratoire de Biom\u00e9trie et Biologie Evolutive, F-69622, Villeurbanne, France","institution_ids":["https://openalex.org/I4210135640","https://openalex.org/I100532134","https://openalex.org/I25112270","https://openalex.org/I1294671590"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5111847748"],"corresponding_institution_ids":["https://openalex.org/I100532134","https://openalex.org/I1294671590","https://openalex.org/I25112270","https://openalex.org/I4210135640"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.5616,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.68094478,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"24","issue":"16","first_page":"i160","last_page":"i166"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.8909000158309937,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.8909000158309937,"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/T10268","display_name":"Developmental Biology and Gene Regulation","score":0.00930000003427267,"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/T12946","display_name":"Fractal and DNA sequence analysis","score":0.008700000122189522,"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/markov-chain","display_name":"Markov chain","score":0.7261736392974854},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6352091431617737},{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.6052131056785583},{"id":"https://openalex.org/keywords/markov-model","display_name":"Markov model","score":0.5269989371299744},{"id":"https://openalex.org/keywords/hidden-markov-model","display_name":"Hidden Markov model","score":0.5160472393035889},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4837639331817627},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.4737197458744049},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4536820948123932},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.422750860452652},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.402309775352478},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2811856269836426},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.24292856454849243},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.08410173654556274}],"concepts":[{"id":"https://openalex.org/C98763669","wikidata":"https://www.wikidata.org/wiki/Q176645","display_name":"Markov chain","level":2,"score":0.7261736392974854},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6352091431617737},{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.6052131056785583},{"id":"https://openalex.org/C163836022","wikidata":"https://www.wikidata.org/wiki/Q6771326","display_name":"Markov model","level":3,"score":0.5269989371299744},{"id":"https://openalex.org/C23224414","wikidata":"https://www.wikidata.org/wiki/Q176769","display_name":"Hidden Markov model","level":2,"score":0.5160472393035889},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4837639331817627},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.4737197458744049},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4536820948123932},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.422750860452652},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.402309775352478},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2811856269836426},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.24292856454849243},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.08410173654556274},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","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/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","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}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008956","descriptor_name":"Models, Chemical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","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":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017421","descriptor_name":"Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017421","descriptor_name":"Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017421","descriptor_name":"Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btn282","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn282","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/16/i160/49051605/bioinformatics_24_16_i160.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:18689819","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18689819","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,"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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:HAL:hal-00428232v1","is_oa":false,"landing_page_url":"https://hal.science/hal-00428232","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2008, 24, pp.i160-i166","raw_type":"Journal articles"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btn282","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn282","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/16/i160/49051605/bioinformatics_24_16_i160.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"},{"id":"https://openalex.org/F4320321091","display_name":"Coordena\u00e7\u00e3o de Aperfei\u00e7oamento de Pessoal de N\u00edvel Superior","ror":"https://ror.org/00x0ma614"},{"id":"https://openalex.org/F4320323809","display_name":"Minist\u00e9rio da Educa\u00e7\u00e3o","ror":"https://ror.org/04d0xx942"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2108959557.pdf","grobid_xml":"https://content.openalex.org/works/W2108959557.grobid-xml"},"referenced_works_count":23,"referenced_works":["https://openalex.org/W1508419498","https://openalex.org/W1592870802","https://openalex.org/W1600795850","https://openalex.org/W1853093403","https://openalex.org/W1923328762","https://openalex.org/W1998300401","https://openalex.org/W2009570821","https://openalex.org/W2015622114","https://openalex.org/W2100558818","https://openalex.org/W2101025813","https://openalex.org/W2107430022","https://openalex.org/W2118215072","https://openalex.org/W2127284131","https://openalex.org/W2131334790","https://openalex.org/W2142890842","https://openalex.org/W2148315211","https://openalex.org/W2154412571","https://openalex.org/W2337480916","https://openalex.org/W4214597316","https://openalex.org/W6635200387","https://openalex.org/W6636070404","https://openalex.org/W6640099064","https://openalex.org/W6674967471"],"related_works":["https://openalex.org/W1510894296","https://openalex.org/W2134386692","https://openalex.org/W2082284720","https://openalex.org/W2084326697","https://openalex.org/W2194396582","https://openalex.org/W2027903142","https://openalex.org/W2116722627","https://openalex.org/W2354322608","https://openalex.org/W2379938888","https://openalex.org/W2804608325"],"abstract_inverted_index":{"MOTIVATION:":[0],"Position":[1],"weight":[2],"matrices":[3],"(PWMs)":[4],"have":[5],"become":[6],"a":[7,96,148],"standard":[8],"for":[9,24,46,80,92,128,134],"representing":[10],"biological":[11,81],"sequence":[12,31,82],"motifs.":[13],"Their":[14],"relative":[15],"simplicity":[16],"has":[17],"favoured":[18],"the":[19,41,53,73,85,88,107,129,145],"development":[20],"of":[21,55,75,90,98,109,131,147],"efficient":[22,103],"algorithms":[23,125],"diverse":[25],"tasks":[26],"such":[27],"as":[28],"motif":[29,137],"identification,":[30],"scanning":[32],"and":[33,87,121],"statistical":[34],"significance":[35],"evaluation.":[36],"Markov":[37,78,136],"chainbased":[38],"models":[39,79],"generalize":[40],"PWM":[42],"model":[43],"by":[44,95],"allowing":[45],"interposition":[47],"dependencies":[48],"to":[49,126],"be":[50,119],"considered,":[51],"at":[52],"cost":[54],"substantial":[56],"computational":[57],"overhead,":[58],"which":[59,112],"may":[60],"limit":[61],"their":[62],"application.":[63],"RESULTS:":[64],"In":[65],"this":[66],"article,":[67],"we":[68],"consider":[69],"two":[70],"aspects":[71],"regarding":[72],"use":[74,108],"higher":[76],"order":[77],"motifs,":[83],"namely,":[84],"representation":[86,104],"computation":[89,130],"P-values":[91,133],"motifs":[93],"described":[94],"set":[97],"occurrences.":[99],"We":[100],"propose":[101],"an":[102],"based":[105],"on":[106],"tries,":[110],"from":[111,152],"empirical":[113],"position-specific":[114],"conditional":[115],"base":[116],"probabilities":[117],"can":[118],"computed,":[120],"extend":[122],"state-of-the-art":[123],"PWM-based":[124],"allow":[127],"exact":[132],"high-order":[135],"models.":[138],"AVAILABILITY:":[139],"The":[140],"software":[141],"is":[142],"available":[143],"in":[144],"form":[146],"Java":[149],"objectoriented":[150],"library":[151],"http://www.cin.ufpe.br/approxiamtely":[153],"paguso/kmarkov.":[154]},"counts_by_year":[{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2016-06-24T00:00:00"}