{"id":"https://openalex.org/W2072471612","doi":"https://doi.org/10.1002/jcc.10411","title":"SVMtm: Support vector machines to predict transmembrane segments","display_name":"SVMtm: Support vector machines to predict transmembrane segments","publication_year":2004,"publication_date":"2004-01-15","ids":{"openalex":"https://openalex.org/W2072471612","doi":"https://doi.org/10.1002/jcc.10411","mag":"2072471612","pmid":"https://pubmed.ncbi.nlm.nih.gov/14978706"},"language":"en","primary_location":{"is_oa":false,"landing_page_url":"https://doi.org/10.1002/jcc.10411","pdf_url":null,"source":{"id":"https://openalex.org/S21117631","display_name":"Journal of Computational Chemistry","issn_l":"0192-8651","issn":["0192-8651","1096-987X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},"type":"article","type_crossref":"journal-article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://cbio.ensmp.fr/~jvert/svn/bibli/local/Yuan2004SVMtm.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100661224","display_name":"Zheng Yuan","orcid":"https://orcid.org/0000-0003-1254-0410"},"institutions":[{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Zheng Yuan","raw_affiliation_strings":["ARC Centre in Bioinformatics, Institute for Molecular Bioscience, The University of Queensland, St. Lucia, 4072, Australia"],"affiliations":[{"raw_affiliation_string":"ARC Centre in Bioinformatics, Institute for Molecular Bioscience, The University of Queensland, St. Lucia, 4072, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023828670","display_name":"John S. Mattick","orcid":"https://orcid.org/0000-0002-7680-7527"},"institutions":[{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"John S. Mattick","raw_affiliation_strings":["ARC Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, The University of Queensland, St. Lucia, 4072, Australia"],"affiliations":[{"raw_affiliation_string":"ARC Special Research Centre for Functional and Applied Genomics, Institute for Molecular Bioscience, The University of Queensland, St. Lucia, 4072, Australia","institution_ids":["https://openalex.org/I165143802"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056823136","display_name":"Rohan D. Teasdale","orcid":"https://orcid.org/0000-0001-7455-5269"},"institutions":[{"id":"https://openalex.org/I165143802","display_name":"University of Queensland","ror":"https://ror.org/00rqy9422","country_code":"AU","type":"education","lineage":["https://openalex.org/I165143802"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Rohan D. Teasdale","raw_affiliation_strings":["ARC Centre in Bioinformatics, Institute for Molecular Bioscience, The University of Queensland, St. Lucia, 4072, Australia"],"affiliations":[{"raw_affiliation_string":"ARC Centre in Bioinformatics, Institute for Molecular Bioscience, The University of Queensland, St. Lucia, 4072, Australia","institution_ids":["https://openalex.org/I165143802"]}]}],"institution_assertions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":4840,"currency":"USD","value_usd":4840,"provenance":"doaj"},"apc_paid":null,"fwci":2.379,"has_fulltext":true,"fulltext_origin":"ngrams","cited_by_count":89,"citation_normalized_percentile":{"value":0.878103,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":96},"biblio":{"volume":"25","issue":"5","first_page":"632","last_page":"636"},"is_retracted":false,"is_paratext":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":1.0,"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":1.0,"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":0.9987,"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":0.998,"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":[],"concepts":[{"id":"https://openalex.org/C24530287","wikidata":"https://www.wikidata.org/wiki/Q424204","display_name":"Transmembrane protein","level":3,"score":0.838679},{"id":"https://openalex.org/C118892022","wikidata":"https://www.wikidata.org/wiki/Q7834587","display_name":"Transmembrane domain","level":3,"score":0.7712977},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.6061071},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5004592},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.42014578},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.39124444},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.34988973},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.32277274},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.24851298},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.22789931},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.101352364},{"id":"https://openalex.org/C41625074","wikidata":"https://www.wikidata.org/wiki/Q176088","display_name":"Membrane","level":2,"score":0.09010959},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021382","descriptor_name":"Protein Sorting Signals","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":"","qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"is_oa":false,"landing_page_url":"https://doi.org/10.1002/jcc.10411","pdf_url":null,"source":{"id":"https://openalex.org/S21117631","display_name":"Journal of Computational Chemistry","issn_l":"0192-8651","issn":["0192-8651","1096-987X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320595","host_organization_name":"Wiley","host_organization_lineage":["https://openalex.org/P4310320595"],"host_organization_lineage_names":["Wiley"],"type":"journal"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},{"is_oa":true,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.411.8984","pdf_url":"http://cbio.ensmp.fr/~jvert/svn/bibli/local/Yuan2004SVMtm.pdf","source":{"id":"https://openalex.org/S4306400349","display_name":"CiteSeer X (The Pennsylvania State University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I130769515","host_organization_name":"Pennsylvania State University","host_organization_lineage":["https://openalex.org/I130769515"],"host_organization_lineage_names":["Pennsylvania State University"],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false},{"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/14978706","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":["National Institutes of Health"],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false}],"best_oa_location":{"is_oa":true,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.411.8984","pdf_url":"http://cbio.ensmp.fr/~jvert/svn/bibli/local/Yuan2004SVMtm.pdf","source":{"id":"https://openalex.org/S4306400349","display_name":"CiteSeer X (The Pennsylvania State University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I130769515","host_organization_name":"Pennsylvania State University","host_organization_lineage":["https://openalex.org/I130769515"],"host_organization_lineage_names":["Pennsylvania State University"],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false},"sustainable_development_goals":[],"grants":[],"datasets":[],"versions":[],"referenced_works_count":21,"referenced_works":["https://openalex.org/W1525523977","https://openalex.org/W1604938182","https://openalex.org/W1975304761","https://openalex.org/W1988284480","https://openalex.org/W1991923946","https://openalex.org/W2019187626","https://openalex.org/W2034410027","https://openalex.org/W2089606003","https://openalex.org/W2097870001","https://openalex.org/W2117919289","https://openalex.org/W2119452210","https://openalex.org/W2119891507","https://openalex.org/W2121249664","https://openalex.org/W2126544665","https://openalex.org/W2132804879","https://openalex.org/W2135478427","https://openalex.org/W2141361074","https://openalex.org/W2141941210","https://openalex.org/W2146396614","https://openalex.org/W2152770371","https://openalex.org/W2156909104"],"related_works":["https://openalex.org/W4293087713","https://openalex.org/W4205671340","https://openalex.org/W3013515612","https://openalex.org/W2389470892","https://openalex.org/W2345184372","https://openalex.org/W2336974148","https://openalex.org/W2187500075","https://openalex.org/W2136184105","https://openalex.org/W2056016498","https://openalex.org/W2041399278"],"abstract_inverted_index":{"A":[0],"new":[1],"method":[2,34,71,86],"has":[3],"been":[4],"developed":[5],"for":[6,101],"prediction":[7,66,95],"of":[8,18,42,46,61,82,104],"transmembrane":[9,38,51,62,74,93],"helices":[10,39],"using":[11],"support":[12],"vector":[13],"machines.":[14],"Different":[15],"coding":[16],"schemes":[17],"protein":[19],"sequences":[20],"were":[21,26],"explored,":[22],"and":[23,44,64,97],"their":[24],"performances":[25],"assessed":[27],"by":[28],"crossvalidation":[29],"tests.":[30],"The":[31,107],"best":[32],"performance":[33],"can":[35,72,87,98],"predict":[36],"the":[37,59,65],"with":[40,79],"sensitivity":[41],"93.4%":[43],"precision":[45],"92.0%.":[47],"For":[48],"each":[49],"predicted":[50],"segment,":[52],"a":[53],"score":[54],"is":[55,109],"given":[56],"to":[57,90],"show":[58],"strength":[60],"signal":[63],"reliability.":[67],"In":[68],"particular,":[69],"this":[70],"distinguish":[73],"proteins":[75,78],"from":[76],"soluble":[77],"an":[80],"accuracy":[81],"approximately":[83],"99%.":[84],"This":[85],"be":[88,99],"used":[89,100],"complement":[91],"current":[92],"helix":[94],"methods":[96],"consensus":[102],"analysis":[103],"entire":[105],"proteomes.":[106],"predictor":[108],"located":[110],"at":[111],"http://genet.imb.uq.edu.au/predictors/SVMtm.":[112]},"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W2072471612","counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":6},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":6},{"year":2012,"cited_by_count":7}],"updated_date":"2025-01-17T03:11:37.419059","created_date":"2016-06-24"}