{"id":"https://openalex.org/W2139041092","doi":"https://doi.org/10.1093/nar/gks559","title":"SPEER-SERVER: a web server for prediction of protein specificity determining sites","display_name":"SPEER-SERVER: a web server for prediction of protein specificity determining sites","publication_year":2012,"publication_date":"2012-06-09","ids":{"openalex":"https://openalex.org/W2139041092","doi":"https://doi.org/10.1093/nar/gks559","mag":"2139041092","pmid":"https://pubmed.ncbi.nlm.nih.gov/22689646"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gks559","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks559","pdf_url":"https://academic.oup.com/nar/article-pdf/40/W1/W242/18784699/gks559.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":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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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://academic.oup.com/nar/article-pdf/40/W1/W242/18784699/gks559.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053398622","display_name":"Abhijit Chakraborty","orcid":"https://orcid.org/0000-0002-1500-3699"},"institutions":[{"id":"https://openalex.org/I160344538","display_name":"Indian Institute of Chemical Biology","ror":"https://ror.org/01kh0x418","country_code":"IN","type":"facility","lineage":["https://openalex.org/I160344538","https://openalex.org/I2799351866","https://openalex.org/I4210134808","https://openalex.org/I66760702"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Abhijit Chakraborty","raw_affiliation_strings":["Structural Biology and Bioinformatics Division, Council for Scientific and Industrial Research (CSIR)-Indian Institute of Chemical Biology (IICB), Kolkata, West Bengal 700032, India","Structural Biology and Bioinformatics Division, Council for Scientific and Industrial Research (CSIR) - Indian Institute of Chemical Biology (IICB), Kolkata, West Bengal 700032, India"],"affiliations":[{"raw_affiliation_string":"Structural Biology and Bioinformatics Division, Council for Scientific and Industrial Research (CSIR)-Indian Institute of Chemical Biology (IICB), Kolkata, West Bengal 700032, India","institution_ids":["https://openalex.org/I160344538"]},{"raw_affiliation_string":"Structural Biology and Bioinformatics Division, Council for Scientific and Industrial Research (CSIR) - Indian Institute of Chemical Biology (IICB), Kolkata, West Bengal 700032, India","institution_ids":["https://openalex.org/I160344538"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025313192","display_name":"Sapan Mandloi","orcid":"https://orcid.org/0000-0001-7486-7166"},"institutions":[{"id":"https://openalex.org/I21360634","display_name":"Council for Scientific and Industrial Research","ror":"https://ror.org/05j00sr48","country_code":"ZA","type":"funder","lineage":["https://openalex.org/I21360634"]},{"id":"https://openalex.org/I160344538","display_name":"Indian Institute of Chemical Biology","ror":"https://ror.org/01kh0x418","country_code":"IN","type":"facility","lineage":["https://openalex.org/I160344538","https://openalex.org/I2799351866","https://openalex.org/I4210134808","https://openalex.org/I66760702"]}],"countries":["IN","ZA"],"is_corresponding":false,"raw_author_name":"Sapan Mandloi","raw_affiliation_strings":["Structural Biology and Bioinformatics Division, Council for Scientific and Industrial Research (CSIR)-Indian Institute of Chemical Biology (IICB), Kolkata, West Bengal 700032, India","Council for Scientific and Industrial Research, Pretoria, South Africa"],"affiliations":[{"raw_affiliation_string":"Structural Biology and Bioinformatics Division, Council for Scientific and Industrial Research (CSIR)-Indian Institute of Chemical Biology (IICB), Kolkata, West Bengal 700032, India","institution_ids":["https://openalex.org/I160344538"]},{"raw_affiliation_string":"Council for Scientific and Industrial Research, Pretoria, South Africa","institution_ids":["https://openalex.org/I21360634"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061900671","display_name":"Christopher J. Lanczycki","orcid":null},"institutions":[{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]},{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I21360634","display_name":"Council for Scientific and Industrial Research","ror":"https://ror.org/05j00sr48","country_code":"ZA","type":"funder","lineage":["https://openalex.org/I21360634"]}],"countries":["US","ZA"],"is_corresponding":false,"raw_author_name":"Christopher J. Lanczycki","raw_affiliation_strings":["National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH), Bethesda, MD 20894, USA","Council for Scientific and Industrial Research, Pretoria, South Africa"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH), Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]},{"raw_affiliation_string":"Council for Scientific and Industrial Research, Pretoria, South Africa","institution_ids":["https://openalex.org/I21360634"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055860373","display_name":"Anna R. Panchenko","orcid":"https://orcid.org/0000-0003-3104-1131"},"institutions":[{"id":"https://openalex.org/I21360634","display_name":"Council for Scientific and Industrial Research","ror":"https://ror.org/05j00sr48","country_code":"ZA","type":"funder","lineage":["https://openalex.org/I21360634"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]},{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]}],"countries":["US","ZA"],"is_corresponding":false,"raw_author_name":"Anna R. Panchenko","raw_affiliation_strings":["National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH), Bethesda, MD 20894, USA","Council for Scientific and Industrial Research, Pretoria, South Africa"],"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information (NCBI), National Library of Medicine (NLM), National Institutes of Health (NIH), Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]},{"raw_affiliation_string":"Council for Scientific and Industrial Research, Pretoria, South Africa","institution_ids":["https://openalex.org/I21360634"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029896069","display_name":"Saikat Chakrabarti","orcid":"https://orcid.org/0000-0003-1015-4014"},"institutions":[{"id":"https://openalex.org/I160344538","display_name":"Indian Institute of Chemical Biology","ror":"https://ror.org/01kh0x418","country_code":"IN","type":"facility","lineage":["https://openalex.org/I160344538","https://openalex.org/I2799351866","https://openalex.org/I4210134808","https://openalex.org/I66760702"]},{"id":"https://openalex.org/I21360634","display_name":"Council for Scientific and Industrial Research","ror":"https://ror.org/05j00sr48","country_code":"ZA","type":"funder","lineage":["https://openalex.org/I21360634"]}],"countries":["IN","ZA"],"is_corresponding":false,"raw_author_name":"Saikat Chakrabarti","raw_affiliation_strings":["Structural Biology and Bioinformatics Division, Council for Scientific and Industrial Research (CSIR)-Indian Institute of Chemical Biology (IICB), Kolkata, West Bengal 700032, India","Council for Scientific and Industrial Research, Pretoria, South Africa"],"affiliations":[{"raw_affiliation_string":"Structural Biology and Bioinformatics Division, Council for Scientific and Industrial Research (CSIR)-Indian Institute of Chemical Biology (IICB), Kolkata, West Bengal 700032, India","institution_ids":["https://openalex.org/I160344538"]},{"raw_affiliation_string":"Council for Scientific and Industrial Research, Pretoria, South Africa","institution_ids":["https://openalex.org/I21360634"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5053398622"],"corresponding_institution_ids":["https://openalex.org/I160344538"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":2.0168,"has_fulltext":true,"cited_by_count":33,"citation_normalized_percentile":{"value":0.86725078,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"40","issue":"W1","first_page":"W242","last_page":"W248"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9973999857902527,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9901000261306763,"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":0.8182828426361084},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.8051326274871826},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.5741655826568604},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.478975772857666},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.43987658619880676},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.38558003306388855},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3787233829498291},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3577246069908142},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3397735059261322},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.3361848294734955},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.12481385469436646}],"concepts":[{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.8182828426361084},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.8051326274871826},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.5741655826568604},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.478975772857666},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.43987658619880676},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.38558003306388855},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3787233829498291},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3577246069908142},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3397735059261322},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.3361848294734955},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.12481385469436646},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","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":"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":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"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":"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":"D016415","descriptor_name":"Sequence Alignment","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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":8,"locations":[{"id":"doi:10.1093/nar/gks559","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks559","pdf_url":"https://academic.oup.com/nar/article-pdf/40/W1/W242/18784699/gks559.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":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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:22689646","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22689646","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:pubmedcentral.nih.gov:3394334","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3394334","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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.788.4007","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.788.4007","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/d4/eb/gks559.PMC3394334.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.913.9286","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.913.9286","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/40/W1/W242.full-text-lowres.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.916.4937","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.916.4937","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/40/W1/W242.full.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.930.360","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.930.360","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/early/2012/06/09/nar.gks559.full.pdf","raw_type":"text"},{"id":"pmh:oai:open-archive.highwire.org:nar:40/W1/W242","is_oa":false,"landing_page_url":"http://nar.oxfordjournals.org/cgi/content/short/40/W1/W242","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/nar/gks559","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gks559","pdf_url":"https://academic.oup.com/nar/article-pdf/40/W1/W242/18784699/gks559.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":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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.6299999952316284,"display_name":"Life in Land"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320306085","display_name":"U.S. Department of Health and Human Services","ror":"https://ror.org/033jnv181"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2139041092.pdf","grobid_xml":"https://content.openalex.org/works/W2139041092.grobid-xml"},"referenced_works_count":42,"referenced_works":["https://openalex.org/W1994261741","https://openalex.org/W1995924392","https://openalex.org/W2016088798","https://openalex.org/W2018300877","https://openalex.org/W2027542060","https://openalex.org/W2028058647","https://openalex.org/W2033561922","https://openalex.org/W2051575557","https://openalex.org/W2085099772","https://openalex.org/W2087634503","https://openalex.org/W2092414509","https://openalex.org/W2100094101","https://openalex.org/W2102931666","https://openalex.org/W2103660241","https://openalex.org/W2104572985","https://openalex.org/W2104601544","https://openalex.org/W2106329053","https://openalex.org/W2107249189","https://openalex.org/W2112955970","https://openalex.org/W2116099439","https://openalex.org/W2119362018","https://openalex.org/W2120772351","https://openalex.org/W2121714338","https://openalex.org/W2125107234","https://openalex.org/W2128478556","https://openalex.org/W2130479394","https://openalex.org/W2137137210","https://openalex.org/W2137991504","https://openalex.org/W2139919097","https://openalex.org/W2140872496","https://openalex.org/W2143004134","https://openalex.org/W2143630321","https://openalex.org/W2145088375","https://openalex.org/W2146213764","https://openalex.org/W2146891463","https://openalex.org/W2148068982","https://openalex.org/W2148171419","https://openalex.org/W2155469822","https://openalex.org/W2164841125","https://openalex.org/W2166416426","https://openalex.org/W2168563301","https://openalex.org/W2468040701"],"related_works":["https://openalex.org/W4238897586","https://openalex.org/W435179959","https://openalex.org/W2619091065","https://openalex.org/W2059640416","https://openalex.org/W1490753184","https://openalex.org/W2284465472","https://openalex.org/W2291782699","https://openalex.org/W1993948687","https://openalex.org/W2011676020","https://openalex.org/W2000169967"],"abstract_inverted_index":{"Sites":[0],"that":[1,69,92,163,176],"show":[2],"specific":[3,42],"conservation":[4,101],"patterns":[5,102],"within":[6,119],"subsets":[7],"of":[8,22,47,99,103,114,130,143,156,177],"proteins":[9],"in":[10,19,38],"a":[11,35,41,53,89,140],"protein":[12,104,121],"family":[13],"are":[14],"likely":[15],"to":[16,40,64],"be":[17],"involved":[18],"the":[20,100,112,120,152,157],"development":[21],"functional":[23],"specificity.":[24],"These":[25],"sites,":[26],"generally":[27],"termed":[28],"specificity":[29],"determining":[30],"sites":[31,105],"(SDS),":[32],"might":[33],"play":[34],"crucial":[36],"role":[37],"binding":[39],"substrate":[43],"or":[44,174],"proteins.":[45],"Identification":[46],"SDS":[48,94],"through":[49],"experimental":[50],"techniques":[51],"is":[52,61,183],"slow,":[54],"difficult":[55],"and":[56,85,111,118,135,138,145,167],"tedious":[57],"job.":[58],"Hence,":[59],"it":[60],"very":[62],"important":[63],"develop":[65],"efficient":[66],"computational":[67],"methods":[68],"can":[70],"more":[71],"expediently":[72],"identify":[73],"SDS.":[74],"Herein,":[75],"we":[76],"present":[77],"Specificity":[78],"prediction":[79],"using":[80],"amino":[81],"acids'":[82],"Properties,":[83],"Entropy":[84],"Evolution":[86],"Rate":[87],"(SPEER)-SERVER,":[88],"web":[90,124],"server":[91,125],"predicts":[93],"by":[95],"analyzing":[96],"quantitative":[97],"measures":[98],"based":[106],"on":[107,171],"their":[108],"physico-chemical":[109],"properties":[110],"heterogeneity":[113],"evolutionary":[115],"changes":[116],"between":[117],"subfamilies.":[122],"This":[123],"provides":[126],"an":[127],"improved":[128],"representation":[129],"results,":[131],"adds":[132],"useful":[133],"input":[134],"output":[136],"options":[137],"integrates":[139],"wide":[141],"range":[142],"analysis":[144],"data":[146],"visualization":[147],"tools":[148],"when":[149],"compared":[150],"with":[151],"original":[153],"standalone":[154],"version":[155],"SPEER":[158],"algorithm.":[159],"Extensive":[160],"benchmarking":[161],"finds":[162],"SPEER-SERVER":[164,182],"exhibits":[165],"sensitivity":[166],"precision":[168],"performance":[169],"that,":[170],"average,":[172],"meets":[173],"exceeds":[175],"other":[178],"currently":[179],"available":[180,184],"methods.":[181],"at":[185],"http://www.hpppi.iicb.res.in/ss/.":[186]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":7},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}