{"id":"https://openalex.org/W79843929","doi":"https://doi.org/10.25596/jalc-2005-687","title":"Computing the Repetitions in a Biological Weighted Sequence","display_name":"Computing the Repetitions in a Biological Weighted Sequence","publication_year":2005,"publication_date":"2005-01-01","ids":{"openalex":"https://openalex.org/W79843929","doi":"https://doi.org/10.25596/jalc-2005-687","mag":"79843929"},"language":"en","primary_location":{"id":"pmh:oai:HAL:hal-00474804v1","is_oa":false,"landing_page_url":"https://hal.science/hal-00474804","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":"Journal of Automata Languages and Combinatorics, 2005, 5 (6), pp.687--696","raw_type":"Journal articles"},"type":"preprint","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.25596/jalc-2005-687","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023119643","display_name":"C.S. Iliopoulos","orcid":null},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Iliopoulos, Costas","raw_affiliation_strings":["Department of Computer Science"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031223951","display_name":"L. Mouchard","orcid":null},"institutions":[{"id":"https://openalex.org/I4210108118","display_name":"Laboratoire d'Informatique, du Traitement de l'Information et des Syst\u00e8mes","ror":"https://ror.org/01f1vfy95","country_code":"FR","type":"facility","lineage":["https://openalex.org/I141576021","https://openalex.org/I4210105918","https://openalex.org/I4210105918","https://openalex.org/I4210105918","https://openalex.org/I4210108118","https://openalex.org/I62396329","https://openalex.org/I88814501"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Mouchard, Laurent","raw_affiliation_strings":["Laboratoire d'Informatique, de Traitement de l'Information et des Syst\u00e8mes","Department of Computer Science"],"affiliations":[{"raw_affiliation_string":"Laboratoire d'Informatique, de Traitement de l'Information et des Syst\u00e8mes","institution_ids":["https://openalex.org/I4210108118"]},{"raw_affiliation_string":"Department of Computer Science","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109008276","display_name":"K. Perdikuri","orcid":null},"institutions":[{"id":"https://openalex.org/I174878644","display_name":"University of Patras","ror":"https://ror.org/017wvtq80","country_code":"GR","type":"education","lineage":["https://openalex.org/I174878644"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Perdikuri, Katerina","raw_affiliation_strings":["University of Patras"],"affiliations":[{"raw_affiliation_string":"University of Patras","institution_ids":["https://openalex.org/I174878644"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5006817442","display_name":"A. Tsakalidis","orcid":null},"institutions":[{"id":"https://openalex.org/I174878644","display_name":"University of Patras","ror":"https://ror.org/017wvtq80","country_code":"GR","type":"education","lineage":["https://openalex.org/I174878644"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Tsakalidis, Athanasios","raw_affiliation_strings":["University of Patras"],"affiliations":[{"raw_affiliation_string":"University of Patras","institution_ids":["https://openalex.org/I174878644"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5023119643"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.0037437,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9987999796867371,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9987999796867371,"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":0.9959999918937683,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9951000213623047,"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/sequence","display_name":"Sequence (biology)","score":0.705141007900238},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3922027051448822},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.37430211901664734},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.256904274225235},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.178920716047287}],"concepts":[{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.705141007900238},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3922027051448822},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.37430211901664734},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.256904274225235},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.178920716047287}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:HAL:hal-00474804v1","is_oa":false,"landing_page_url":"https://hal.science/hal-00474804","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":"Journal of Automata Languages and Combinatorics, 2005, 5 (6), pp.687--696","raw_type":"Journal articles"},{"id":"doi:10.25596/jalc-2005-687","is_oa":true,"landing_page_url":"https://doi.org/10.25596/jalc-2005-687","pdf_url":null,"source":{"id":"https://openalex.org/S7407052944","display_name":"Justus-Liebig-Universit\u00e4t Gie\u00dfen","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.25596/jalc-2005-687","is_oa":true,"landing_page_url":"https://doi.org/10.25596/jalc-2005-687","pdf_url":null,"source":{"id":"https://openalex.org/S7407052944","display_name":"Justus-Liebig-Universit\u00e4t Gie\u00dfen","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":15,"referenced_works":["https://openalex.org/W1509982770","https://openalex.org/W1528544059","https://openalex.org/W1882010690","https://openalex.org/W1973456884","https://openalex.org/W2021282293","https://openalex.org/W2024145045","https://openalex.org/W2041877620","https://openalex.org/W2065398612","https://openalex.org/W2067787802","https://openalex.org/W2084552725","https://openalex.org/W2116628377","https://openalex.org/W2117175075","https://openalex.org/W2127230663","https://openalex.org/W2315142528","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W1979597421","https://openalex.org/W2007980826","https://openalex.org/W4245490552","https://openalex.org/W4225152035","https://openalex.org/W2061531152","https://openalex.org/W3002753104","https://openalex.org/W2077600819","https://openalex.org/W1587224694","https://openalex.org/W2911598644"],"abstract_inverted_index":{"One":[0],"of":[1,31,37,54,79,88,107],"the":[2,35,39,49,52,56,77,105,108],"most":[3],"important":[4],"goals":[5],"in":[6,14,41,48,58,81,104,111],"computational":[7],"molecular":[8],"biology":[9],"is":[10,95],"allocating":[11],"repeated":[12,109],"patterns":[13,110],"nucleic":[15],"or":[16,22],"protein":[17],"sequences,":[18],"and":[19],"identifying":[20],"structural":[21],"functional":[23],"motifs":[24],"that":[25],"are":[26],"common":[27],"to":[28],"a":[29,82,96],"set":[30,78],"such":[32,115],"sequences.":[33,119],"Although":[34],"problem":[36,53],"computing":[38,55,76],"repetitions":[40,57,80],"biological":[42,59,83,112],"sequences":[43,61,114],"has":[44,62],"been":[45,64],"extensively":[46],"studied,":[47],"relevant":[50],"literature,":[51],"weighted":[60,84,113],"not":[63],"efficiently":[65],"solved.":[66],"In":[67],"this":[68],"work":[69],"we":[70],"present":[71],"an":[72],"$O(n^2)$":[73],"algorithm":[74,100],"for":[75],"sequence":[85],"with":[86],"probability":[87],"appearance":[89],"larger":[90],"than":[91],"$1/k$,":[92],"where":[93],"$k$":[94],"given":[97],"constant.":[98],"Our":[99],"can":[101],"be":[102],"applied":[103],"detection":[106],"as":[116],"assembled":[117],"DNA":[118]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2025-11-06T06:51:31.235846","created_date":"2025-10-10T00:00:00"}
