{"id":"https://openalex.org/W1986532736","doi":"https://doi.org/10.1186/1471-2105-11-s8-s7","title":"Exploiting physico-chemical properties in string kernels","display_name":"Exploiting physico-chemical properties in string kernels","publication_year":2010,"publication_date":"2010-10-01","ids":{"openalex":"https://openalex.org/W1986532736","doi":"https://doi.org/10.1186/1471-2105-11-s8-s7","mag":"1986532736","pmid":"https://pubmed.ncbi.nlm.nih.gov/21034432"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-11-s8-s7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-s8-s7","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-S8-S7","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-S8-S7","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078378799","display_name":"Nora C. Toussaint","orcid":"https://orcid.org/0000-0001-7911-7647"},"institutions":[{"id":"https://openalex.org/I8087733","display_name":"University of T\u00fcbingen","ror":"https://ror.org/03a1kwz48","country_code":"DE","type":"education","lineage":["https://openalex.org/I8087733"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Nora C Toussaint","raw_affiliation_strings":["Center for Bioinformatics, Eberhard-Karls-Universit\u00e4t, Sand 14, 72076 T\u00fcbingen, Germany. nora.toussaint@uni-tuebingen.de","Center for Bioinformatics, Eberhard-Karls-Universit\u00e4t, T\u00fcbingen, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, Eberhard-Karls-Universit\u00e4t, Sand 14, 72076 T\u00fcbingen, Germany. nora.toussaint@uni-tuebingen.de","institution_ids":["https://openalex.org/I8087733"]},{"raw_affiliation_string":"Center for Bioinformatics, Eberhard-Karls-Universit\u00e4t, T\u00fcbingen, Germany","institution_ids":["https://openalex.org/I8087733"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048359140","display_name":"Christian Widmer","orcid":null},"institutions":[{"id":"https://openalex.org/I149899117","display_name":"Max Planck Society","ror":"https://ror.org/01hhn8329","country_code":"DE","type":"funder","lineage":["https://openalex.org/I149899117"]},{"id":"https://openalex.org/I4210147862","display_name":"Friedrich Miescher Laboratory","ror":"https://ror.org/04vh1tq58","country_code":"DE","type":"nonprofit","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210147862"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Christian Widmer","raw_affiliation_strings":["Friedrich Miescher Laboratory of the Max Planck Society, Spemannstr. 39, 72076, T\u00fcbingen, Germany","Friedrich Miescher Laboratory of the Max Planck Society, T\u00fcbingen, Germany#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Friedrich Miescher Laboratory of the Max Planck Society, Spemannstr. 39, 72076, T\u00fcbingen, Germany","institution_ids":["https://openalex.org/I4210147862","https://openalex.org/I149899117"]},{"raw_affiliation_string":"Friedrich Miescher Laboratory of the Max Planck Society, T\u00fcbingen, Germany#TAB#","institution_ids":["https://openalex.org/I149899117"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053621010","display_name":"Oliver Kohlbacher","orcid":"https://orcid.org/0000-0003-1739-4598"},"institutions":[{"id":"https://openalex.org/I8087733","display_name":"University of T\u00fcbingen","ror":"https://ror.org/03a1kwz48","country_code":"DE","type":"education","lineage":["https://openalex.org/I8087733"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Oliver Kohlbacher","raw_affiliation_strings":["Center for Bioinformatics, Eberhard-Karls-Universit\u00e4t, Sand 14, 72076, T\u00fcbingen, Germany","Center for Bioinformatics, Eberhard-Karls-Universit\u00e4t, T\u00fcbingen, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, Eberhard-Karls-Universit\u00e4t, Sand 14, 72076, T\u00fcbingen, Germany","institution_ids":["https://openalex.org/I8087733"]},{"raw_affiliation_string":"Center for Bioinformatics, Eberhard-Karls-Universit\u00e4t, T\u00fcbingen, Germany","institution_ids":["https://openalex.org/I8087733"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5035416263","display_name":"Gunnar R\u00e4tsch","orcid":"https://orcid.org/0000-0001-5486-8532"},"institutions":[{"id":"https://openalex.org/I149899117","display_name":"Max Planck Society","ror":"https://ror.org/01hhn8329","country_code":"DE","type":"funder","lineage":["https://openalex.org/I149899117"]},{"id":"https://openalex.org/I4210147862","display_name":"Friedrich Miescher Laboratory","ror":"https://ror.org/04vh1tq58","country_code":"DE","type":"nonprofit","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210147862"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Gunnar R\u00e4tsch","raw_affiliation_strings":["Friedrich Miescher Laboratory of the Max Planck Society, Spemannstr. 39, 72076, T\u00fcbingen, Germany","Friedrich Miescher Laboratory of the Max Planck Society, T\u00fcbingen, Germany#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Friedrich Miescher Laboratory of the Max Planck Society, Spemannstr. 39, 72076, T\u00fcbingen, Germany","institution_ids":["https://openalex.org/I4210147862","https://openalex.org/I149899117"]},{"raw_affiliation_string":"Friedrich Miescher Laboratory of the Max Planck Society, T\u00fcbingen, Germany#TAB#","institution_ids":["https://openalex.org/I149899117"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5078378799"],"corresponding_institution_ids":["https://openalex.org/I8087733"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":1.4971,"has_fulltext":true,"cited_by_count":24,"citation_normalized_percentile":{"value":0.80770031,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"11","issue":"S8","first_page":"S7","last_page":"S7"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.8921999931335449,"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":0.8921999931335449,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.021199999377131462,"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.014700000174343586,"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/substring","display_name":"Substring","score":0.9107533097267151},{"id":"https://openalex.org/keywords/string","display_name":"String (physics)","score":0.8033746480941772},{"id":"https://openalex.org/keywords/string-kernel","display_name":"String kernel","score":0.6803516149520874},{"id":"https://openalex.org/keywords/kernel","display_name":"Kernel (algebra)","score":0.5939894914627075},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5872282981872559},{"id":"https://openalex.org/keywords/amino-acid","display_name":"Amino acid","score":0.5203040242195129},{"id":"https://openalex.org/keywords/edit-distance","display_name":"Edit distance","score":0.4282028079032898},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.42059633135795593},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3595343232154846},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3588027358055115},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.34335464239120483},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.32759037613868713},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3245169520378113},{"id":"https://openalex.org/keywords/kernel-method","display_name":"Kernel method","score":0.312467098236084},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.24293455481529236},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.241824209690094},{"id":"https://openalex.org/keywords/data-structure","display_name":"Data structure","score":0.1632223129272461},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.15371978282928467},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1166098415851593},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10199218988418579},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.09208601713180542},{"id":"https://openalex.org/keywords/radial-basis-function-kernel","display_name":"Radial basis function kernel","score":0.08989515900611877}],"concepts":[{"id":"https://openalex.org/C182407805","wikidata":"https://www.wikidata.org/wiki/Q2626534","display_name":"Substring","level":3,"score":0.9107533097267151},{"id":"https://openalex.org/C157486923","wikidata":"https://www.wikidata.org/wiki/Q1376436","display_name":"String (physics)","level":2,"score":0.8033746480941772},{"id":"https://openalex.org/C55851704","wikidata":"https://www.wikidata.org/wiki/Q7623983","display_name":"String kernel","level":5,"score":0.6803516149520874},{"id":"https://openalex.org/C74193536","wikidata":"https://www.wikidata.org/wiki/Q574844","display_name":"Kernel (algebra)","level":2,"score":0.5939894914627075},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5872282981872559},{"id":"https://openalex.org/C515207424","wikidata":"https://www.wikidata.org/wiki/Q8066","display_name":"Amino acid","level":2,"score":0.5203040242195129},{"id":"https://openalex.org/C44359876","wikidata":"https://www.wikidata.org/wiki/Q5338467","display_name":"Edit distance","level":2,"score":0.4282028079032898},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.42059633135795593},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3595343232154846},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3588027358055115},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.34335464239120483},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.32759037613868713},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3245169520378113},{"id":"https://openalex.org/C122280245","wikidata":"https://www.wikidata.org/wiki/Q620622","display_name":"Kernel method","level":3,"score":0.312467098236084},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.24293455481529236},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.241824209690094},{"id":"https://openalex.org/C162319229","wikidata":"https://www.wikidata.org/wiki/Q175263","display_name":"Data structure","level":2,"score":0.1632223129272461},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.15371978282928467},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1166098415851593},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10199218988418579},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.09208601713180542},{"id":"https://openalex.org/C75866337","wikidata":"https://www.wikidata.org/wiki/Q7280263","display_name":"Radial basis function kernel","level":4,"score":0.08989515900611877},{"id":"https://openalex.org/C37914503","wikidata":"https://www.wikidata.org/wiki/Q156495","display_name":"Mathematical physics","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":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008285","descriptor_name":"Major Histocompatibility Complex","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055598","descriptor_name":"Chemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055598","descriptor_name":"Chemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055598","descriptor_name":"Chemical Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-11-s8-s7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-s8-s7","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-S8-S7","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21034432","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21034432","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:ce72853be46543b6992083bc94d95551","is_oa":true,"landing_page_url":"https://doaj.org/article/ce72853be46543b6992083bc94d95551","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 11, Iss Suppl 8, p S7 (2010)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2966294","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2966294","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-11-s8-s7","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-s8-s7","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-S8-S7","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1560004781","display_name":null,"funder_award_id":"SFB 685","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"}],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1986532736.pdf","grobid_xml":"https://content.openalex.org/works/W1986532736.grobid-xml"},"referenced_works_count":31,"referenced_works":["https://openalex.org/W1542652324","https://openalex.org/W1571024744","https://openalex.org/W1595314835","https://openalex.org/W1604938182","https://openalex.org/W2014731953","https://openalex.org/W2020816856","https://openalex.org/W2027582332","https://openalex.org/W2037263319","https://openalex.org/W2066358615","https://openalex.org/W2088065111","https://openalex.org/W2094706980","https://openalex.org/W2095573931","https://openalex.org/W2095780288","https://openalex.org/W2099401974","https://openalex.org/W2100549317","https://openalex.org/W2104139298","https://openalex.org/W2106575335","https://openalex.org/W2121950477","https://openalex.org/W2134491728","https://openalex.org/W2135374184","https://openalex.org/W2136490963","https://openalex.org/W2142013909","https://openalex.org/W2143210482","https://openalex.org/W2151949149","https://openalex.org/W2164492849","https://openalex.org/W2167568509","https://openalex.org/W2170960297","https://openalex.org/W2477408078","https://openalex.org/W2533703023","https://openalex.org/W4247272746","https://openalex.org/W4312960235"],"related_works":["https://openalex.org/W2136519138","https://openalex.org/W1989944203","https://openalex.org/W1998479724","https://openalex.org/W2546839375","https://openalex.org/W2051304374","https://openalex.org/W4286787697","https://openalex.org/W152351265","https://openalex.org/W1505605100","https://openalex.org/W3043769852","https://openalex.org/W3042295250"],"abstract_inverted_index":{"BACKGROUND:":[0],"String":[1],"kernels":[2,21,91,113,125,149,157,189,195,218],"are":[3,22,114,210,219],"commonly":[4],"used":[5],"for":[6,99,198],"the":[7,49,94,103,111,131,135,141,167,172,175,184,194,216,224],"classification":[8,121,128],"of":[9,43,96,105,110,134,143,196,215,223],"biological":[10],"sequences,":[11],"nucleotide":[12],"as":[13,15,53,221],"well":[14],"amino":[16,30,47,100,144],"acid":[17,145],"sequences.":[18,136],"Although":[19],"string":[20,90,106,148,156],"already":[23],"very":[24,61,74],"powerful,":[25],"when":[26,45,64],"it":[27],"comes":[28],"to":[29,154,159,192],"acids":[31,101],"they":[32],"have":[33,71],"a":[34],"major":[35],"short":[36],"coming.":[37],"They":[38],"ignore":[39],"an":[40],"important":[41],"piece":[42],"information":[44,59,209],"comparing":[46],"acids:":[48],"physico-chemical":[50,97],"properties":[51,146],"such":[52],"size,":[54],"hydrophobicity,":[55],"or":[56],"charge.":[57],"This":[58],"is":[60,67],"valuable,":[62],"especially":[63],"training":[65],"data":[66],"less":[68],"abundant.":[69],"There":[70],"been":[72],"only":[73],"few":[75],"approaches":[76],"so":[77],"far":[78],"that":[79,92,140],"aim":[80],"at":[81],"combining":[82],"these":[83],"two":[84,117],"ideas.":[85],"RESULTS:":[86],"We":[87],"propose":[88],"new":[89],"combine":[93],"benefits":[95,109],"descriptors":[98],"with":[102,174],"ones":[104],"kernels.":[107,163],"The":[108,187],"proposed":[112,161,168,188],"assessed":[115],"on":[116,130],"problems:":[118],"MHC-peptide":[119],"binding":[120],"using":[122],"position":[123],"specific":[124],"and":[126,158,207],"protein":[127,200],"based":[129],"substring":[132,177],"spectrum":[133],"Our":[137],"experiments":[138],"demonstrate":[139],"incorporation":[142],"in":[147,170],"yields":[150],"improved":[151],"performances":[152],"compared":[153],"standard":[155],"previously":[160],"non-substring":[162],"CONCLUSIONS:":[164],"In":[165],"summary,":[166],"modifications,":[169],"particular":[171],"combination":[173],"RBF":[176],"kernel,":[178],"consistently":[179],"yield":[180],"improvements":[181],"without":[182],"affecting":[183],"computational":[185],"complexity.":[186],"therefore":[190],"appear":[191],"be":[193],"choice":[197],"any":[199],"sequence-based":[201],"inference.":[202],"AVAILABILITY:":[203],"Data":[204],"sets,":[205],"code":[206],"additional":[208],"available":[211,220],"from":[212],"http://www.fml.tuebingen.mpg.de/raetsch/suppl/aask.":[213],"Implementations":[214],"developed":[217],"part":[222],"Shogun":[225],"toolbox.":[226]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":6},{"year":2013,"cited_by_count":6},{"year":2012,"cited_by_count":3}],"updated_date":"2026-05-23T08:51:43.019350","created_date":"2025-10-10T00:00:00"}
