{"id":"https://openalex.org/W2150839989","doi":"https://doi.org/10.1093/nar/gki112","title":"The SBASE domain sequence resource, release 12: prediction of protein domain-architecture using support vector machines","display_name":"The SBASE domain sequence resource, release 12: prediction of protein domain-architecture using support vector machines","publication_year":2004,"publication_date":"2004-12-17","ids":{"openalex":"https://openalex.org/W2150839989","doi":"https://doi.org/10.1093/nar/gki112","mag":"2150839989","pmid":"https://pubmed.ncbi.nlm.nih.gov/15608182"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gki112","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gki112","pdf_url":"https://academic.oup.com/nar/article-pdf/33/suppl_1/D223/7622318/gki112.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/nar/article-pdf/33/suppl_1/D223/7622318/gki112.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078029536","display_name":"Kristian Vlahovi\u010dek","orcid":"https://orcid.org/0000-0002-5705-2464"},"institutions":[{"id":"https://openalex.org/I91080651","display_name":"International Centre for Genetic Engineering and Biotechnology","ror":"https://ror.org/043bgf219","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I91080651"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"K. Vlahovicek","raw_affiliation_strings":["ICGEB-International Center for Genetic Engineering and Biotechnology, Area Science Park, 34012 Trieste, Italy","ICGEB-International Center for Genetic Engineering and Biotechnology, Area Science Park, 34012 Trieste, Italy and"],"affiliations":[{"raw_affiliation_string":"ICGEB-International Center for Genetic Engineering and Biotechnology, Area Science Park, 34012 Trieste, Italy","institution_ids":[]},{"raw_affiliation_string":"ICGEB-International Center for Genetic Engineering and Biotechnology, Area Science Park, 34012 Trieste, Italy and","institution_ids":["https://openalex.org/I91080651"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5078029536"],"corresponding_institution_ids":["https://openalex.org/I91080651"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":0.6029,"has_fulltext":true,"cited_by_count":29,"citation_normalized_percentile":{"value":0.66066108,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"33","issue":"Database issue","first_page":"D223","last_page":"D225"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9988999962806702,"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":0.9988999962806702,"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":0.9975000023841858,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9961000084877014,"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/similarity","display_name":"Similarity (geometry)","score":0.7711546421051025},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7469921112060547},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.7191681861877441},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.6738398671150208},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.6415250301361084},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.597054123878479},{"id":"https://openalex.org/keywords/protein-domain","display_name":"Protein domain","score":0.584591269493103},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.48559826612472534},{"id":"https://openalex.org/keywords/protein-sequencing","display_name":"Protein sequencing","score":0.473811537027359},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.47372785210609436},{"id":"https://openalex.org/keywords/structural-similarity","display_name":"Structural similarity","score":0.4639769196510315},{"id":"https://openalex.org/keywords/architecture-domain","display_name":"Architecture domain","score":0.4257810413837433},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.41455718874931335},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3681594133377075},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3641025424003601},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.3229028582572937},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3122512102127075},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.30218935012817383},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.25680214166641235},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.12667939066886902},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.10569587349891663},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.08798637986183167}],"concepts":[{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.7711546421051025},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7469921112060547},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.7191681861877441},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6738398671150208},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.6415250301361084},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.597054123878479},{"id":"https://openalex.org/C144292202","wikidata":"https://www.wikidata.org/wiki/Q898273","display_name":"Protein domain","level":3,"score":0.584591269493103},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.48559826612472534},{"id":"https://openalex.org/C10010492","wikidata":"https://www.wikidata.org/wiki/Q3142557","display_name":"Protein sequencing","level":4,"score":0.473811537027359},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.47372785210609436},{"id":"https://openalex.org/C139489369","wikidata":"https://www.wikidata.org/wiki/Q770846","display_name":"Structural similarity","level":2,"score":0.4639769196510315},{"id":"https://openalex.org/C194167682","wikidata":"https://www.wikidata.org/wiki/Q4787088","display_name":"Architecture domain","level":5,"score":0.4257810413837433},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.41455718874931335},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3681594133377075},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3641025424003601},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.3229028582572937},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3122512102127075},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.30218935012817383},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.25680214166641235},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.12667939066886902},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.10569587349891663},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.08798637986183167},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C35869016","wikidata":"https://www.wikidata.org/wiki/Q846636","display_name":"Software architecture","level":3,"score":0.0},{"id":"https://openalex.org/C27591593","wikidata":"https://www.wikidata.org/wiki/Q4380897","display_name":"Enterprise architecture framework","level":4,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0}],"mesh":[{"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":"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":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1093/nar/gki112","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gki112","pdf_url":"https://academic.oup.com/nar/article-pdf/33/suppl_1/D223/7622318/gki112.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:15608182","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15608182","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.284.4417","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.284.4417","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/3d/b3/Nucleic_Acids_Res_2005_Jan_1_33(Database_Issue)_D223-D225.tar.gz","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.411.7159","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.411.7159","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://cbio.ensmp.fr/~jvert/svn/bibli/local/Vlahovicek2005SBASE.pdf","raw_type":"text"},{"id":"pmh:oai:europepmc.org:163554","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC540066","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:540066","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/540066","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gki112","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gki112","pdf_url":"https://academic.oup.com/nar/article-pdf/33/suppl_1/D223/7622318/gki112.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320322192","display_name":"Magyar Tudom\u00e1nyos Akad\u00e9mia","ror":"https://ror.org/02ks8qq67"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2150839989.pdf","grobid_xml":"https://content.openalex.org/works/W2150839989.grobid-xml"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W1522238243","https://openalex.org/W1963867239","https://openalex.org/W2046179517","https://openalex.org/W2061850669","https://openalex.org/W2079791132","https://openalex.org/W2094592259","https://openalex.org/W2108401170","https://openalex.org/W2140455347","https://openalex.org/W2141885858","https://openalex.org/W2154139219","https://openalex.org/W2160972279","https://openalex.org/W2161241566","https://openalex.org/W2163105490","https://openalex.org/W2418920612","https://openalex.org/W4210400672","https://openalex.org/W4320301318"],"related_works":["https://openalex.org/W2050194408","https://openalex.org/W2045839655","https://openalex.org/W2096676112","https://openalex.org/W2045751102","https://openalex.org/W2084367350","https://openalex.org/W2161033884","https://openalex.org/W4386158261","https://openalex.org/W2102882929","https://openalex.org/W2908283214","https://openalex.org/W2121560377"],"abstract_inverted_index":{"SBASE":[0,24,49],"(http://www.icgeb.trieste.it/sbase)":[1],"is":[2,63],"an":[3,66],"online":[4],"resource":[5],"designed":[6],"to":[7],"facilitate":[8],"the":[9,23],"detection":[10],"of":[11,22,27,68,78,91],"domain":[12,29,47,53],"homologies":[13],"based":[14,64],"on":[15,65,87],"sequence":[16,34],"database":[17,69],"search.":[18],"The":[19],"present":[20],"release":[21],"A":[25],"library":[26],"protein":[28,33],"sequences":[30,54],"contains":[31,51],"972,397":[32],"segments":[35],"annotated":[36],"by":[37],"structure,":[38],"function,":[39],"ligand-binding":[40],"or":[41],"cellular":[42],"topology,":[43],"clustered":[44,55],"into":[45,56],"8547":[46],"groups.":[48,60],"B":[50],"169,916":[52],"2526":[57],"less":[58],"well-characterized":[59],"Domain":[61],"prediction":[62],"evaluation":[67],"search":[70,89],"results":[71,90],"in":[72],"comparison":[73],"with":[74],"a":[75],"'similarity":[76],"network'":[77],"inter-sequence":[79],"similarity":[80,88],"scores,":[81],"using":[82],"support":[83],"vector":[84],"machines":[85],"trained":[86],"known":[92],"domains.":[93]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}