{"id":"https://openalex.org/W2128072323","doi":"https://doi.org/10.1093/bioinformatics/bth410","title":"A software program combining sequence motif searches with keywords for finding repeats containing DNA sequences","display_name":"A software program combining sequence motif searches with keywords for finding repeats containing DNA sequences","publication_year":2004,"publication_date":"2004-07-15","ids":{"openalex":"https://openalex.org/W2128072323","doi":"https://doi.org/10.1093/bioinformatics/bth410","mag":"2128072323","pmid":"https://pubmed.ncbi.nlm.nih.gov/15256410"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bth410","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth410","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/18/3379/520517/bth410.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/20/18/3379/520517/bth410.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5042036265","display_name":"Mehmet Bilgen","orcid":"https://orcid.org/0000-0001-5671-2021"},"institutions":[{"id":"https://openalex.org/I197907453","display_name":"Akdeniz University","ror":"https://ror.org/01m59r132","country_code":"TR","type":"education","lineage":["https://openalex.org/I197907453"]}],"countries":["TR"],"is_corresponding":true,"raw_author_name":"Mehmet Bilgen","raw_affiliation_strings":["Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey","Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey#TAB#"],"affiliations":[{"raw_affiliation_string":"Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey","institution_ids":["https://openalex.org/I197907453"]},{"raw_affiliation_string":"Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey#TAB#","institution_ids":["https://openalex.org/I197907453"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065786768","display_name":"Mehmet Karaca","orcid":"https://orcid.org/0000-0003-3219-9109"},"institutions":[{"id":"https://openalex.org/I197907453","display_name":"Akdeniz University","ror":"https://ror.org/01m59r132","country_code":"TR","type":"education","lineage":["https://openalex.org/I197907453"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Mehmet Karaca","raw_affiliation_strings":["Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey","Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey#TAB#"],"affiliations":[{"raw_affiliation_string":"Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey","institution_ids":["https://openalex.org/I197907453"]},{"raw_affiliation_string":"Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey#TAB#","institution_ids":["https://openalex.org/I197907453"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006746640","display_name":"Ahmet Naci Onus","orcid":"https://orcid.org/0000-0001-8615-1480"},"institutions":[{"id":"https://openalex.org/I197907453","display_name":"Akdeniz University","ror":"https://ror.org/01m59r132","country_code":"TR","type":"education","lineage":["https://openalex.org/I197907453"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"A. Naci Onus","raw_affiliation_strings":["Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey","Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey#TAB#"],"affiliations":[{"raw_affiliation_string":"Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey","institution_ids":["https://openalex.org/I197907453"]},{"raw_affiliation_string":"Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey#TAB#","institution_ids":["https://openalex.org/I197907453"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5067256467","display_name":"Ay\u015fe G\u00fcl \u0130nce","orcid":"https://orcid.org/0000-0002-9015-6580"},"institutions":[{"id":"https://openalex.org/I197907453","display_name":"Akdeniz University","ror":"https://ror.org/01m59r132","country_code":"TR","type":"education","lineage":["https://openalex.org/I197907453"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Ay\u015fe G\u00fcl Ince","raw_affiliation_strings":["Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey","Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey#TAB#"],"affiliations":[{"raw_affiliation_string":"Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey","institution_ids":["https://openalex.org/I197907453"]},{"raw_affiliation_string":"Faculty of Agriculture, Akdeniz University, 07059 Antalya, Turkey#TAB#","institution_ids":["https://openalex.org/I197907453"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5042036265"],"corresponding_institution_ids":["https://openalex.org/I197907453"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.3508,"has_fulltext":false,"cited_by_count":46,"citation_normalized_percentile":{"value":0.58046842,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"20","issue":"18","first_page":"3379","last_page":"3386"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9990000128746033,"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":0.9990000128746033,"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":0.9933000206947327,"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/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.9891999959945679,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/genbank","display_name":"GenBank","score":0.8597948551177979},{"id":"https://openalex.org/keywords/tandem-repeat","display_name":"Tandem repeat","score":0.8173543214797974},{"id":"https://openalex.org/keywords/expressed-sequence-tag","display_name":"Expressed sequence tag","score":0.6895837187767029},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6514284610748291},{"id":"https://openalex.org/keywords/microsatellite","display_name":"Microsatellite","score":0.597843587398529},{"id":"https://openalex.org/keywords/coding-region","display_name":"Coding region","score":0.5919939279556274},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5650819540023804},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5320578217506409},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5251864194869995},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4856516122817993},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.47119995951652527}],"concepts":[{"id":"https://openalex.org/C79029880","wikidata":"https://www.wikidata.org/wiki/Q901755","display_name":"GenBank","level":3,"score":0.8597948551177979},{"id":"https://openalex.org/C27149982","wikidata":"https://www.wikidata.org/wiki/Q3456514","display_name":"Tandem repeat","level":4,"score":0.8173543214797974},{"id":"https://openalex.org/C149034497","wikidata":"https://www.wikidata.org/wiki/Q1384835","display_name":"Expressed sequence tag","level":4,"score":0.6895837187767029},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6514284610748291},{"id":"https://openalex.org/C61320498","wikidata":"https://www.wikidata.org/wiki/Q265193","display_name":"Microsatellite","level":4,"score":0.597843587398529},{"id":"https://openalex.org/C91779695","wikidata":"https://www.wikidata.org/wiki/Q3780824","display_name":"Coding region","level":3,"score":0.5919939279556274},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5650819540023804},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5320578217506409},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5251864194869995},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4856516122817993},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.47119995951652527},{"id":"https://openalex.org/C180754005","wikidata":"https://www.wikidata.org/wiki/Q80726","display_name":"Allele","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018514","descriptor_name":"Plant Structures","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018514","descriptor_name":"Plant Structures","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018514","descriptor_name":"Plant Structures","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020080","descriptor_name":"Tandem Repeat Sequences","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020224","descriptor_name":"Expressed Sequence Tags","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020224","descriptor_name":"Expressed Sequence Tags","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020224","descriptor_name":"Expressed Sequence Tags","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D029681","descriptor_name":"Arabidopsis Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029681","descriptor_name":"Arabidopsis Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029681","descriptor_name":"Arabidopsis Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bth410","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth410","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/18/3379/520517/bth410.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:15256410","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15256410","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}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bth410","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bth410","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/20/18/3379/520517/bth410.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":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2128072323.pdf","grobid_xml":"https://content.openalex.org/works/W2128072323.grobid-xml"},"referenced_works_count":28,"referenced_works":["https://openalex.org/W146385924","https://openalex.org/W1531625140","https://openalex.org/W1543846386","https://openalex.org/W1564714167","https://openalex.org/W1568479515","https://openalex.org/W1946340895","https://openalex.org/W1983359810","https://openalex.org/W1991188483","https://openalex.org/W2025446621","https://openalex.org/W2029297065","https://openalex.org/W2029572737","https://openalex.org/W2044631122","https://openalex.org/W2048520054","https://openalex.org/W2053919212","https://openalex.org/W2058584493","https://openalex.org/W2067306139","https://openalex.org/W2069003894","https://openalex.org/W2084893171","https://openalex.org/W2090631526","https://openalex.org/W2097095628","https://openalex.org/W2103704875","https://openalex.org/W2112814753","https://openalex.org/W2123316289","https://openalex.org/W2123546399","https://openalex.org/W2124281279","https://openalex.org/W2132683746","https://openalex.org/W2146707382","https://openalex.org/W2158714788"],"related_works":["https://openalex.org/W2372841600","https://openalex.org/W3034803574","https://openalex.org/W253490991","https://openalex.org/W2515671908","https://openalex.org/W2946505882","https://openalex.org/W2352864340","https://openalex.org/W1443061357","https://openalex.org/W2375071235","https://openalex.org/W2393887791","https://openalex.org/W3141223289"],"abstract_inverted_index":{"The":[0],"program":[1],"can":[2],"be":[3],"obtained":[4],"free":[5],"by":[6],"anonymous":[7],"FTP":[8],"from":[9],"ftp.akdeniz.edu.tr/Araclar/TRA.":[10]},"counts_by_year":[{"year":2024,"cited_by_count":3},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":4},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2},{"year":2012,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
