{"id":"https://openalex.org/W1938173378","doi":"https://doi.org/10.1093/nar/gkv485","title":"The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides","display_name":"The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides","publication_year":2015,"publication_date":"2015-05-12","ids":{"openalex":"https://openalex.org/W1938173378","doi":"https://doi.org/10.1093/nar/gkv485","mag":"1938173378","pmid":"https://pubmed.ncbi.nlm.nih.gov/25969446"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkv485","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkv485","pdf_url":null,"source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"gold","oa_url":"https://doi.org/10.1093/nar/gkv485","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5087868319","display_name":"Konstantinos D. Tsirigos","orcid":"https://orcid.org/0000-0001-5280-1107"},"institutions":[{"id":"https://openalex.org/I161593684","display_name":"Stockholm University","ror":"https://ror.org/05f0yaq80","country_code":"SE","type":"education","lineage":["https://openalex.org/I161593684"]},{"id":"https://openalex.org/I2800139495","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22","country_code":"SE","type":"facility","lineage":["https://openalex.org/I2800139495"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Konstantinos D. Tsirigos","raw_affiliation_strings":["Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden","Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I161593684"]},{"raw_affiliation_string":"Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden","institution_ids":["https://openalex.org/I161593684"]},{"raw_affiliation_string":"Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I161593684"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033421842","display_name":"Christoph Peters","orcid":"https://orcid.org/0000-0001-8140-1516"},"institutions":[{"id":"https://openalex.org/I161593684","display_name":"Stockholm University","ror":"https://ror.org/05f0yaq80","country_code":"SE","type":"education","lineage":["https://openalex.org/I161593684"]},{"id":"https://openalex.org/I2800139495","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22","country_code":"SE","type":"facility","lineage":["https://openalex.org/I2800139495"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Christoph Peters","raw_affiliation_strings":["Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden","Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I161593684"]},{"raw_affiliation_string":"Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden","institution_ids":["https://openalex.org/I161593684"]},{"raw_affiliation_string":"Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I161593684"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101420205","display_name":"Nanjiang Shu","orcid":"https://orcid.org/0000-0002-3537-2387"},"institutions":[{"id":"https://openalex.org/I161593684","display_name":"Stockholm University","ror":"https://ror.org/05f0yaq80","country_code":"SE","type":"education","lineage":["https://openalex.org/I161593684"]},{"id":"https://openalex.org/I2800139495","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22","country_code":"SE","type":"facility","lineage":["https://openalex.org/I2800139495"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Nanjiang Shu","raw_affiliation_strings":["Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden Bioinformatics Infrastructure for Life Sciences (BILS), Stockholm University, Sweden","Bioinformatics Infrastructure for Life Sciences (BILS), Stockholm University, Sweden","Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden","Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden Bioinformatics Infrastructure for Life Sciences (BILS), Stockholm University, Sweden","institution_ids":[]},{"raw_affiliation_string":"Bioinformatics Infrastructure for Life Sciences (BILS), Stockholm University, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I161593684"]},{"raw_affiliation_string":"Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden","institution_ids":["https://openalex.org/I161593684"]},{"raw_affiliation_string":"Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I161593684"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036241287","display_name":"Lukas K\u00e4ll","orcid":"https://orcid.org/0000-0001-5689-9797"},"institutions":[{"id":"https://openalex.org/I2800139495","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22","country_code":"SE","type":"facility","lineage":["https://openalex.org/I2800139495"]},{"id":"https://openalex.org/I161593684","display_name":"Stockholm University","ror":"https://ror.org/05f0yaq80","country_code":"SE","type":"education","lineage":["https://openalex.org/I161593684"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Lukas K\u00e4ll","raw_affiliation_strings":["Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden","Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I161593684"]},{"raw_affiliation_string":"Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden","institution_ids":["https://openalex.org/I161593684"]},{"raw_affiliation_string":"Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I161593684"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5072903725","display_name":"Arne Elofsson","orcid":"https://orcid.org/0000-0002-7115-9751"},"institutions":[{"id":"https://openalex.org/I161593684","display_name":"Stockholm University","ror":"https://ror.org/05f0yaq80","country_code":"SE","type":"education","lineage":["https://openalex.org/I161593684"]},{"id":"https://openalex.org/I2800139495","display_name":"Science for Life Laboratory","ror":"https://ror.org/04ev03g22","country_code":"SE","type":"facility","lineage":["https://openalex.org/I2800139495"]}],"countries":["SE"],"is_corresponding":true,"raw_author_name":"Arne Elofsson","raw_affiliation_strings":["Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden arne@bioinfo.se","Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden","Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden arne@bioinfo.se","institution_ids":[]},{"raw_affiliation_string":"Department of Biochemistry and Biophysics, Stockholm University, 10691 Stockholm, Sweden","institution_ids":["https://openalex.org/I161593684"]},{"raw_affiliation_string":"Science for Life Laboratory, Stockholm University, Box 1031, 17121 Solna, Sweden","institution_ids":["https://openalex.org/I2800139495","https://openalex.org/I161593684"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5072903725"],"corresponding_institution_ids":["https://openalex.org/I161593684","https://openalex.org/I2800139495"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":35.4653,"has_fulltext":false,"cited_by_count":990,"citation_normalized_percentile":{"value":0.9987706,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"43","issue":"W1","first_page":"W401","last_page":"W407"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9997000098228455,"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":0.9983999729156494,"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/web-server","display_name":"Web server","score":0.688197135925293},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6010590195655823},{"id":"https://openalex.org/keywords/proteome","display_name":"Proteome","score":0.5983314514160156},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5566768646240234},{"id":"https://openalex.org/keywords/protein-sorting-signals","display_name":"Protein Sorting Signals","score":0.5467489957809448},{"id":"https://openalex.org/keywords/topology","display_name":"Topology (electrical circuits)","score":0.5460240840911865},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4839058816432953},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.4457187354564667},{"id":"https://openalex.org/keywords/homology","display_name":"Homology (biology)","score":0.43809017539024353},{"id":"https://openalex.org/keywords/membrane-protein","display_name":"Membrane protein","score":0.43685030937194824},{"id":"https://openalex.org/keywords/transmembrane-protein","display_name":"Transmembrane protein","score":0.4344694912433624},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.39240026473999023},{"id":"https://openalex.org/keywords/signal-peptide","display_name":"Signal peptide","score":0.37555307149887085},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.2874911427497864},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.20424187183380127},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13819620013237},{"id":"https://openalex.org/keywords/membrane","display_name":"Membrane","score":0.12567764520645142},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.0961938202381134},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.09301617741584778},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09195980429649353}],"concepts":[{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.688197135925293},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6010590195655823},{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.5983314514160156},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5566768646240234},{"id":"https://openalex.org/C2908929163","wikidata":"https://www.wikidata.org/wiki/Q658882","display_name":"Protein Sorting Signals","level":5,"score":0.5467489957809448},{"id":"https://openalex.org/C184720557","wikidata":"https://www.wikidata.org/wiki/Q7825049","display_name":"Topology (electrical circuits)","level":2,"score":0.5460240840911865},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4839058816432953},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.4457187354564667},{"id":"https://openalex.org/C165525559","wikidata":"https://www.wikidata.org/wiki/Q224180","display_name":"Homology (biology)","level":3,"score":0.43809017539024353},{"id":"https://openalex.org/C144647389","wikidata":"https://www.wikidata.org/wiki/Q423042","display_name":"Membrane protein","level":3,"score":0.43685030937194824},{"id":"https://openalex.org/C24530287","wikidata":"https://www.wikidata.org/wiki/Q424204","display_name":"Transmembrane protein","level":3,"score":0.4344694912433624},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.39240026473999023},{"id":"https://openalex.org/C10858879","wikidata":"https://www.wikidata.org/wiki/Q899790","display_name":"Signal peptide","level":4,"score":0.37555307149887085},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.2874911427497864},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.20424187183380127},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13819620013237},{"id":"https://openalex.org/C41625074","wikidata":"https://www.wikidata.org/wiki/Q176088","display_name":"Membrane","level":2,"score":0.12567764520645142},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0961938202381134},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.09301617741584778},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09195980429649353},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"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":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":"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":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D021382","descriptor_name":"Protein Sorting Signals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D021382","descriptor_name":"Protein Sorting Signals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D021382","descriptor_name":"Protein Sorting Signals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040681","descriptor_name":"Structural Homology, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/nar/gkv485","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkv485","pdf_url":null,"source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:25969446","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25969446","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:10.1.1.772.3849","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.772.3849","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/a8/ff/gkv485.PMC4489233.pdf","raw_type":"text"},{"id":"pmh:oai:DiVA.org:su-120710","is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-120710","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article in journal"},{"id":"pmh:oai:europepmc.org:3458138","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4489233","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkv485","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkv485","pdf_url":null,"source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":45,"referenced_works":["https://openalex.org/W1526754730","https://openalex.org/W1537715653","https://openalex.org/W1544009106","https://openalex.org/W1939505221","https://openalex.org/W1971147414","https://openalex.org/W1996478334","https://openalex.org/W2047544230","https://openalex.org/W2047663485","https://openalex.org/W2055043387","https://openalex.org/W2076048958","https://openalex.org/W2081125504","https://openalex.org/W2085815217","https://openalex.org/W2089606003","https://openalex.org/W2092247420","https://openalex.org/W2094201044","https://openalex.org/W2097775366","https://openalex.org/W2097870001","https://openalex.org/W2101466114","https://openalex.org/W2105537627","https://openalex.org/W2108649941","https://openalex.org/W2110425545","https://openalex.org/W2112905569","https://openalex.org/W2116521730","https://openalex.org/W2124088653","https://openalex.org/W2124097377","https://openalex.org/W2132820240","https://openalex.org/W2137827030","https://openalex.org/W2138122982","https://openalex.org/W2142107319","https://openalex.org/W2143768153","https://openalex.org/W2145336405","https://openalex.org/W2147526198","https://openalex.org/W2149407349","https://openalex.org/W2150383975","https://openalex.org/W2151156268","https://openalex.org/W2152748513","https://openalex.org/W2152770371","https://openalex.org/W2155225302","https://openalex.org/W2158623906","https://openalex.org/W2158714788","https://openalex.org/W2163137692","https://openalex.org/W2164025376","https://openalex.org/W2170463736","https://openalex.org/W2605068739","https://openalex.org/W4236236547"],"related_works":["https://openalex.org/W1829364434","https://openalex.org/W2010230246","https://openalex.org/W2734424435","https://openalex.org/W1977121829","https://openalex.org/W1971147414","https://openalex.org/W4249474173","https://openalex.org/W2097747021","https://openalex.org/W2075741622","https://openalex.org/W2943131258","https://openalex.org/W2761639599"],"abstract_inverted_index":{"TOPCONS":[0,32,173],"(http://topcons.net/)":[1],"is":[2,59,68,82,93,145,174],"a":[3,18,64,85,129,138,186],"widely":[4],"used":[5,69],"web":[6],"server":[7,44,57,106],"for":[8,115],"consensus":[9],"prediction":[10,81],"of":[11,87,99,152],"membrane":[12,53],"protein":[13],"topology.":[14],"We":[15],"hereby":[16],"present":[17],"major":[19],"update":[20],"to":[21,70,137,166],"the":[22,29,72,79,96,105,119,124,142,150,167,175],"server,":[23],"with":[24,95,135],"some":[25],"substantial":[26],"improvements,":[27],"including":[28],"following:":[30],"(i)":[31],"can":[33,45,121,179],"now":[34,46,58,122],"efficiently":[35],"separate":[36],"signal":[37,181],"peptides":[38,182],"from":[39],"transmembrane":[40],"regions.":[41],"(ii)":[42],"The":[43,56,90],"differentiate":[47],"more":[48],"successfully":[49],"between":[50],"globular":[51],"and":[52,103,172,183],"proteins.":[54],"(iii)":[55],"even":[60],"slightly":[61],"faster,":[62],"although":[63],"much":[65],"larger":[66],"database":[67],"generate":[71],"multiple":[73],"sequence":[74],"alignments.":[75],"For":[76,133],"most":[77],"proteins,":[78],"final":[80],"produced":[83],"in":[84,128,160,189],"matter":[86],"seconds.":[88],"(iv)":[89],"user-friendly":[91],"interface":[92],"retained,":[94],"additional":[97],"feature":[98],"submitting":[100],"batch":[101],"files":[102],"accessing":[104],"programmatically":[107],"using":[108],"standard":[109],"interfaces,":[110],"making":[111],"it":[112],"thus":[113],"ideal":[114],"proteome-wide":[116],"analyses.":[117],"Indicatively,":[118],"user":[120],"scan":[123],"entire":[125],"human":[126],"proteome":[127],"few":[130],"days.":[131],"(v)":[132],"proteins":[134],"homology":[136],"known":[139],"3D":[140],"structure,":[141],"homology-inferred":[143],"topology":[144,190],"also":[146],"displayed.":[147],"(vi)":[148],"Finally,":[149],"combination":[151],"methods":[153,171],"currently":[154,168],"implemented":[155],"achieves":[156],"an":[157],"overall":[158],"increase":[159],"performance":[161,188],"by":[162],"4%":[163],"as":[164],"compared":[165],"available":[169],"best-scoring":[170],"only":[176],"method":[177],"that":[178],"identify":[180],"still":[184],"maintain":[185],"state-of-the-art":[187],"predictions.":[191]},"counts_by_year":[{"year":2026,"cited_by_count":23},{"year":2025,"cited_by_count":92},{"year":2024,"cited_by_count":97},{"year":2023,"cited_by_count":91},{"year":2022,"cited_by_count":119},{"year":2021,"cited_by_count":128},{"year":2020,"cited_by_count":119},{"year":2019,"cited_by_count":87},{"year":2018,"cited_by_count":81},{"year":2017,"cited_by_count":89},{"year":2016,"cited_by_count":52},{"year":2015,"cited_by_count":11},{"year":2013,"cited_by_count":1}],"updated_date":"2026-04-11T08:14:18.477133","created_date":"2025-10-10T00:00:00"}
