{"id":"https://openalex.org/W2088313106","doi":"https://doi.org/10.1142/s0129065707001214","title":"EVOLUTIONARY OPTIMIZATION OF SEQUENCE KERNELS FOR DETECTION OF BACTERIAL GENE STARTS","display_name":"EVOLUTIONARY OPTIMIZATION OF SEQUENCE KERNELS FOR DETECTION OF BACTERIAL GENE STARTS","publication_year":2007,"publication_date":"2007-10-01","ids":{"openalex":"https://openalex.org/W2088313106","doi":"https://doi.org/10.1142/s0129065707001214","mag":"2088313106","pmid":"https://pubmed.ncbi.nlm.nih.gov/18098369"},"language":"en","primary_location":{"id":"doi:10.1142/s0129065707001214","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0129065707001214","pdf_url":null,"source":{"id":"https://openalex.org/S197665576","display_name":"International Journal of Neural Systems","issn_l":"0129-0657","issn":["0129-0657","1793-6462"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319815","host_organization_name":"World Scientific","host_organization_lineage":["https://openalex.org/P4310319815"],"host_organization_lineage_names":["World Scientific"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Neural Systems","raw_type":"journal-article"},"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/A5018270722","display_name":"Britta Mersch","orcid":null},"institutions":[{"id":"https://openalex.org/I17937529","display_name":"German Cancer Research Center","ror":"https://ror.org/04cdgtt98","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I17937529"]},{"id":"https://openalex.org/I223822909","display_name":"Heidelberg University","ror":"https://ror.org/038t36y30","country_code":"DE","type":"education","lineage":["https://openalex.org/I223822909"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"BRITTA MERSCH","raw_affiliation_strings":["Abteilung Molekulare Biophysik, German Cancer Research Center, 69120 Heidelberg, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Abteilung Molekulare Biophysik, German Cancer Research Center, 69120 Heidelberg, Germany","institution_ids":["https://openalex.org/I17937529","https://openalex.org/I223822909"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000470711","display_name":"Tobias Glasmachers","orcid":"https://orcid.org/0000-0003-1886-1696"},"institutions":[{"id":"https://openalex.org/I904495901","display_name":"Ruhr University Bochum","ror":"https://ror.org/04tsk2644","country_code":"DE","type":"education","lineage":["https://openalex.org/I904495901"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"TOBIAS GLASMACHERS","raw_affiliation_strings":["Institut f\u00fcr Neuroinformatik, Ruhr-Universit\u00e4t Bochum, 44780 Bochum, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut f\u00fcr Neuroinformatik, Ruhr-Universit\u00e4t Bochum, 44780 Bochum, Germany","institution_ids":["https://openalex.org/I904495901"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030195753","display_name":"Peter Meinicke","orcid":"https://orcid.org/0009-0002-2228-3403"},"institutions":[{"id":"https://openalex.org/I74656192","display_name":"University of G\u00f6ttingen","ror":"https://ror.org/01y9bpm73","country_code":"DE","type":"education","lineage":["https://openalex.org/I74656192"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"PETER MEINICKE","raw_affiliation_strings":["Institut f\u00fcr Mikrobiologie und Genetik, Abteilung f\u00fcr Bioinformatik, Georg-August-Universit\u00e4t G\u00f6ttingen, 37077 G\u00f6ttingen, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut f\u00fcr Mikrobiologie und Genetik, Abteilung f\u00fcr Bioinformatik, Georg-August-Universit\u00e4t G\u00f6ttingen, 37077 G\u00f6ttingen, Germany","institution_ids":["https://openalex.org/I74656192"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5042628612","display_name":"Christian Igel","orcid":"https://orcid.org/0000-0003-2868-0856"},"institutions":[{"id":"https://openalex.org/I904495901","display_name":"Ruhr University Bochum","ror":"https://ror.org/04tsk2644","country_code":"DE","type":"education","lineage":["https://openalex.org/I904495901"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"CHRISTIAN IGEL","raw_affiliation_strings":["Institut f\u00fcr Neuroinformatik, Ruhr-Universit\u00e4t Bochum, 44780 Bochum, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institut f\u00fcr Neuroinformatik, Ruhr-Universit\u00e4t Bochum, 44780 Bochum, Germany","institution_ids":["https://openalex.org/I904495901"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":1.4805,"has_fulltext":false,"cited_by_count":24,"citation_normalized_percentile":{"value":0.81227556,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"17","issue":"05","first_page":"369","last_page":"381"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9991000294685364,"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":0.9991000294685364,"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":0.9977999925613403,"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":0.9947999715805054,"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/discriminative-model","display_name":"Discriminative model","score":0.8557982444763184},{"id":"https://openalex.org/keywords/kernel","display_name":"Kernel (algebra)","score":0.6716451644897461},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.6550177931785583},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.6457726955413818},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5660419464111328},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5506035685539246},{"id":"https://openalex.org/keywords/covariance","display_name":"Covariance","score":0.5423970222473145},{"id":"https://openalex.org/keywords/covariance-matrix","display_name":"Covariance matrix","score":0.5385454893112183},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.48740866780281067},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.375685453414917},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3629074692726135},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1887298822402954},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.16476106643676758},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1231512725353241},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.10622304677963257}],"concepts":[{"id":"https://openalex.org/C97931131","wikidata":"https://www.wikidata.org/wiki/Q5282087","display_name":"Discriminative model","level":2,"score":0.8557982444763184},{"id":"https://openalex.org/C74193536","wikidata":"https://www.wikidata.org/wiki/Q574844","display_name":"Kernel (algebra)","level":2,"score":0.6716451644897461},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6550177931785583},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.6457726955413818},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5660419464111328},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5506035685539246},{"id":"https://openalex.org/C178650346","wikidata":"https://www.wikidata.org/wiki/Q201984","display_name":"Covariance","level":2,"score":0.5423970222473145},{"id":"https://openalex.org/C185142706","wikidata":"https://www.wikidata.org/wiki/Q1134404","display_name":"Covariance matrix","level":2,"score":0.5385454893112183},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.48740866780281067},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.375685453414917},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3629074692726135},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1887298822402954},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.16476106643676758},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1231512725353241},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.10622304677963257},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"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}],"locations_count":2,"locations":[{"id":"doi:10.1142/s0129065707001214","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0129065707001214","pdf_url":null,"source":{"id":"https://openalex.org/S197665576","display_name":"International Journal of Neural Systems","issn_l":"0129-0657","issn":["0129-0657","1793-6462"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319815","host_organization_name":"World Scientific","host_organization_lineage":["https://openalex.org/P4310319815"],"host_organization_lineage_names":["World Scientific"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Neural Systems","raw_type":"journal-article"},{"id":"pmid:18098369","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18098369","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":"International journal of neural systems","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.800000011920929,"id":"https://metadata.un.org/sdg/10","display_name":"Reduced inequalities"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":38,"referenced_works":["https://openalex.org/W1480376652","https://openalex.org/W1558136956","https://openalex.org/W1563088657","https://openalex.org/W1576660662","https://openalex.org/W1605438009","https://openalex.org/W1680797894","https://openalex.org/W1893008471","https://openalex.org/W1975884452","https://openalex.org/W1986490585","https://openalex.org/W2005752251","https://openalex.org/W2007959190","https://openalex.org/W2018962053","https://openalex.org/W2058426472","https://openalex.org/W2073354904","https://openalex.org/W2082311728","https://openalex.org/W2099401974","https://openalex.org/W2099680562","https://openalex.org/W2100967622","https://openalex.org/W2103005127","https://openalex.org/W2109553965","https://openalex.org/W2110652811","https://openalex.org/W2112036188","https://openalex.org/W2114281975","https://openalex.org/W2115694019","https://openalex.org/W2119821739","https://openalex.org/W2123676422","https://openalex.org/W2134153749","https://openalex.org/W2140389641","https://openalex.org/W2143628522","https://openalex.org/W2143694966","https://openalex.org/W2145991872","https://openalex.org/W2152353853","https://openalex.org/W2154494093","https://openalex.org/W2158001550","https://openalex.org/W2166064969","https://openalex.org/W2999905431","https://openalex.org/W3104323038","https://openalex.org/W3144619878"],"related_works":["https://openalex.org/W2965546495","https://openalex.org/W4389116644","https://openalex.org/W2153315159","https://openalex.org/W3103844505","https://openalex.org/W4205463238","https://openalex.org/W2142324288","https://openalex.org/W4295068701","https://openalex.org/W1489099099","https://openalex.org/W2886934452","https://openalex.org/W1974955043"],"abstract_inverted_index":{"Oligo":[0],"kernels":[1,72,82],"for":[2,14,73,98,100],"biological":[3],"sequence":[4],"classification":[5,39,86],"have":[6],"a":[7],"high":[8],"discriminative":[9,45],"power.":[10],"A":[11],"new":[12],"parameterization":[13],"the":[15,38,49,56,69,74,89,93,106],"K-mer":[16],"oligo":[17,71],"kernel":[18,51],"is":[19,62,65],"presented,":[20],"where":[21],"all":[22],"oligomers":[23],"of":[24,34,76,95,102],"length":[25],"K":[26],"are":[27],"weighted":[28],"individually.":[29],"The":[30,80],"task":[31],"specific":[32],"choice":[33],"these":[35],"parameters":[36,52,91],"increases":[37],"performance":[40],"and":[41,88],"reveals":[42],"information":[43],"about":[44],"features.":[46],"For":[47],"adapting":[48],"multiple":[50],"based":[53],"on":[54],"cross-validation":[55],"covariance":[57],"matrix":[58],"adaptation":[59],"evolution":[60],"strategy":[61],"proposed.":[63],"It":[64],"applied":[66],"to":[67,84],"optimize":[68],"trimer":[70],"detection":[75],"bacterial":[77],"gene":[78],"starts.":[79],"resulting":[81],"lead":[83],"higher":[85],"rates,":[87],"adapted":[90],"reveal":[92],"importance":[94],"particular":[96],"triplets":[97],"classification,":[99],"example":[101],"those":[103],"occurring":[104],"in":[105],"Shine-Dalgarno":[107],"Sequence.":[108]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2012,"cited_by_count":5}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}