{"id":"https://openalex.org/W2137700623","doi":"https://doi.org/10.1093/bioinformatics/btn618","title":"Identification of structurally conserved residues of proteins in absence of structural homologs using neural network ensemble","display_name":"Identification of structurally conserved residues of proteins in absence of structural homologs using neural network ensemble","publication_year":2008,"publication_date":"2008-11-27","ids":{"openalex":"https://openalex.org/W2137700623","doi":"https://doi.org/10.1093/bioinformatics/btn618","mag":"2137700623","pmid":"https://pubmed.ncbi.nlm.nih.gov/19038986"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btn618","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn618","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/2/204/48982605/bioinformatics_25_2_204.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","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/bioinformatics/article-pdf/25/2/204/48982605/bioinformatics_25_2_204.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006893514","display_name":"Ganesan Pugalenthi","orcid":"https://orcid.org/0000-0002-5234-5700"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"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/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]},{"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"]}],"countries":["CN","SG","US"],"is_corresponding":false,"raw_author_name":"Ganesan Pugalenthi","raw_affiliation_strings":["1 School of Electrical and Electronic Engineering, Nanyang Technological University, Singapore 639798, 2Department of Computer Science and Technology, University of Science and Technology of China, Hefei, Anhui, China and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Electrical and Electronic Engineering, Nanyang Technological University, Singapore 639798, 2Department of Computer Science and Technology, University of Science and Technology of China, Hefei, Anhui, China and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I172675005","https://openalex.org/I1299303238","https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021254405","display_name":"Ke Tang","orcid":"https://orcid.org/0000-0002-6236-2002"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"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/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]},{"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"]}],"countries":["CN","SG","US"],"is_corresponding":false,"raw_author_name":"Ke Tang","raw_affiliation_strings":["1 School of Electrical and Electronic Engineering, Nanyang Technological University, Singapore 639798, 2Department of Computer Science and Technology, University of Science and Technology of China, Hefei, Anhui, China and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Electrical and Electronic Engineering, Nanyang Technological University, Singapore 639798, 2Department of Computer Science and Technology, University of Science and Technology of China, Hefei, Anhui, China and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I172675005","https://openalex.org/I1299303238","https://openalex.org/I126520041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025626208","display_name":"Ponnuthurai Nagaratnam Suganthan","orcid":"https://orcid.org/0000-0003-0901-5105"},"institutions":[{"id":"https://openalex.org/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"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/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]},{"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"]}],"countries":["CN","SG","US"],"is_corresponding":true,"raw_author_name":"P. N. Suganthan","raw_affiliation_strings":["1 School of Electrical and Electronic Engineering, Nanyang Technological University, Singapore 639798, 2Department of Computer Science and Technology, University of Science and Technology of China, Hefei, Anhui, China and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Electrical and Electronic Engineering, Nanyang Technological University, Singapore 639798, 2Department of Computer Science and Technology, University of Science and Technology of China, Hefei, Anhui, China and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I172675005","https://openalex.org/I1299303238","https://openalex.org/I126520041"]}]},{"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/I126520041","display_name":"University of Science and Technology of China","ror":"https://ror.org/04c4dkn09","country_code":"CN","type":"education","lineage":["https://openalex.org/I126520041","https://openalex.org/I19820366"]},{"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/I172675005","display_name":"Nanyang Technological University","ror":"https://ror.org/02e7b5302","country_code":"SG","type":"education","lineage":["https://openalex.org/I172675005"]},{"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"]}],"countries":["CN","SG","US"],"is_corresponding":true,"raw_author_name":"Saikat Chakrabarti","raw_affiliation_strings":["1 School of Electrical and Electronic Engineering, Nanyang Technological University, Singapore 639798, 2Department of Computer Science and Technology, University of Science and Technology of China, Hefei, Anhui, China and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Electrical and Electronic Engineering, Nanyang Technological University, Singapore 639798, 2Department of Computer Science and Technology, University of Science and Technology of China, Hefei, Anhui, China and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I172675005","https://openalex.org/I1299303238","https://openalex.org/I126520041"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5025626208","https://openalex.org/A5029896069"],"corresponding_institution_ids":["https://openalex.org/I126520041","https://openalex.org/I1299303238","https://openalex.org/I172675005","https://openalex.org/I4210109390"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.8424,"has_fulltext":true,"cited_by_count":16,"citation_normalized_percentile":{"value":0.73387521,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"25","issue":"2","first_page":"204","last_page":"210"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.628600001335144,"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":0.628600001335144,"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":0.26809999346733093,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.031599998474121094,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/protein-superfamily","display_name":"Protein superfamily","score":0.7301906943321228},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.6049036383628845},{"id":"https://openalex.org/keywords/bottleneck","display_name":"Bottleneck","score":0.5662776231765747},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.5581261515617371},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5448155999183655},{"id":"https://openalex.org/keywords/matthews-correlation-coefficient","display_name":"Matthews correlation coefficient","score":0.532004177570343},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4962218403816223},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.45953842997550964},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.4506984055042267},{"id":"https://openalex.org/keywords/information-bottleneck-method","display_name":"Information bottleneck method","score":0.4244897961616516},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3994457721710205},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.34438014030456543},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3153996169567108},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.23134922981262207},{"id":"https://openalex.org/keywords/mutual-information","display_name":"Mutual information","score":0.15129470825195312},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.07371529936790466}],"concepts":[{"id":"https://openalex.org/C178180057","wikidata":"https://www.wikidata.org/wiki/Q7251477","display_name":"Protein superfamily","level":3,"score":0.7301906943321228},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6049036383628845},{"id":"https://openalex.org/C2780513914","wikidata":"https://www.wikidata.org/wiki/Q18210350","display_name":"Bottleneck","level":2,"score":0.5662776231765747},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.5581261515617371},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5448155999183655},{"id":"https://openalex.org/C164085508","wikidata":"https://www.wikidata.org/wiki/Q4811327","display_name":"Matthews correlation coefficient","level":3,"score":0.532004177570343},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4962218403816223},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.45953842997550964},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.4506984055042267},{"id":"https://openalex.org/C60008888","wikidata":"https://www.wikidata.org/wiki/Q6031013","display_name":"Information bottleneck method","level":3,"score":0.4244897961616516},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3994457721710205},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.34438014030456543},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3153996169567108},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.23134922981262207},{"id":"https://openalex.org/C152139883","wikidata":"https://www.wikidata.org/wiki/Q252973","display_name":"Mutual information","level":2,"score":0.15129470825195312},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07371529936790466},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.0}],"mesh":[{"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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","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":false},{"descriptor_ui":"D017434","descriptor_name":"Protein Structure, Tertiary","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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btn618","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn618","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/2/204/48982605/bioinformatics_25_2_204.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:19038986","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19038986","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:2638999","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2638999","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btn618","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn618","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/2/204/48982605/bioinformatics_25_2_204.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6100000143051147,"id":"https://metadata.un.org/sdg/15","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/F4320320696","display_name":"Agency for Science, Technology and Research","ror":"https://ror.org/036wvzt09"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"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":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2137700623.pdf","grobid_xml":"https://content.openalex.org/works/W2137700623.grobid-xml"},"referenced_works_count":35,"referenced_works":["https://openalex.org/W187027856","https://openalex.org/W1485790693","https://openalex.org/W1619377810","https://openalex.org/W1910104793","https://openalex.org/W1979734180","https://openalex.org/W2011235285","https://openalex.org/W2014731953","https://openalex.org/W2015180542","https://openalex.org/W2035353430","https://openalex.org/W2045777307","https://openalex.org/W2061119986","https://openalex.org/W2068876170","https://openalex.org/W2080251754","https://openalex.org/W2094070589","https://openalex.org/W2096054712","https://openalex.org/W2106882534","https://openalex.org/W2116374865","https://openalex.org/W2125800162","https://openalex.org/W2130393164","https://openalex.org/W2130479394","https://openalex.org/W2132300672","https://openalex.org/W2133076404","https://openalex.org/W2142209403","https://openalex.org/W2142529984","https://openalex.org/W2143354676","https://openalex.org/W2145295592","https://openalex.org/W2152847734","https://openalex.org/W2158714788","https://openalex.org/W2159829830","https://openalex.org/W3144883424","https://openalex.org/W3146003712","https://openalex.org/W4298266977","https://openalex.org/W6607486826","https://openalex.org/W6636413496","https://openalex.org/W6639760820"],"related_works":["https://openalex.org/W1975591133","https://openalex.org/W2044467472","https://openalex.org/W2144482528","https://openalex.org/W2064074838","https://openalex.org/W2137700623","https://openalex.org/W2341388321","https://openalex.org/W2106800067","https://openalex.org/W2117923629","https://openalex.org/W646353556","https://openalex.org/W2751260413"],"abstract_inverted_index":{"MOTIVATION:":[0],"So":[1],"far":[2],"various":[3],"bioinformatics":[4],"and":[5,14,43,83,118,122,148,175,226],"machine":[6],"learning":[7,97],"techniques":[8],"applied":[9,129],"for":[10,26,67,102,197],"identification":[11,68,103,156,200],"of":[12,29,69,104,157,172,195,201],"sequence":[13],"functionally":[15],"conserved":[16,31,106],"residues":[17,32,72,107],"in":[18,53,109,155,218],"proteins.":[19],"Although":[20],"few":[21],"computational":[22],"methods":[23,38],"are":[24,228],"available":[25],"the":[27,173,180,193,199],"prediction":[28,145],"structurally":[30,70,105],"from":[33,73,137,206],"protein":[34,54,76,139,163,209],"structure,":[35],"almost":[36],"all":[37],"require":[39],"homologous":[40,80],"structural":[41,81,84,123,224],"information":[42,82,204],"structure-based":[44],"alignments,":[45],"which":[46],"still":[47],"prove":[48],"to":[49,130],"be":[50,215],"a":[51,63,74,207],"bottleneck":[52],"structure":[55,77],"comparison":[56],"studies.":[57],"In":[58],"this":[59,212],"work,":[60],"we":[61],"developed":[62,101],"neural":[64,88],"network":[65,89],"approach":[66,99],"important":[71],"single":[75,208],"without":[78],"using":[79,111,161],"alignment.":[85],"RESULTS:":[86],"A":[87],"ensemble":[90],"(NNE)":[91],"method":[92,127,142,213],"that":[93,113,133,168,179],"utilizes":[94],"negative":[95],"correlation":[96,151],"(NCL)":[98],"was":[100,128],"(SCRs)":[108],"proteins":[110],"features":[112],"represent":[114],"amino":[115],"acid":[116],"conservation":[117],"composition,":[119],"physico-chemical":[120],"properties":[121],"properties.":[124],"The":[125],"NCL-NNE":[126,181,196],"6042":[131],"SCRs":[132,167,185,202],"have":[134],"been":[135],"extracted":[136],"496":[138],"domains.":[140],"This":[141],"obtained":[143],"high":[144],"sensitivity":[146],"(92.8%)":[147],"quality":[149],"(Matthew's":[150],"coefficient":[152],"is":[153],"0.852)":[154],"SCRs.":[158],"Further":[159],"benchmarking":[160,220],"60":[162],"domains":[164],"containing":[165],"1657":[166],"were":[169],"not":[170],"part":[171],"training":[174],"testing":[176],"datasets":[177],"shows":[178],"can":[182],"correctly":[183],"predict":[184],"with":[186],"approximately":[187],"90%":[188],"sensitivity.":[189],"These":[190],"results":[191],"suggest":[192],"usefulness":[194],"facilitating":[198],"utilizing":[203],"derived":[205],"structure.":[210],"Therefore,":[211],"could":[214],"extremely":[216],"effective":[217],"large-scale":[219],"studies":[221],"where":[222],"reliable":[223],"homologs":[225],"alignments":[227],"limited.":[229]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}
