{"id":"https://openalex.org/W2944535254","doi":"https://doi.org/10.1093/bioinformatics/btz291","title":"ResPRE: high-accuracy protein contact prediction by coupling precision matrix with deep residual neural networks","display_name":"ResPRE: high-accuracy protein contact prediction by coupling precision matrix with deep residual neural networks","publication_year":2019,"publication_date":"2019-04-17","ids":{"openalex":"https://openalex.org/W2944535254","doi":"https://doi.org/10.1093/bioinformatics/btz291","mag":"2944535254","pmid":"https://pubmed.ncbi.nlm.nih.gov/31070716"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz291","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz291","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/22/4647/30706660/btz291.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":null,"license_id":null,"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":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/35/22/4647/30706660/btz291.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100645670","display_name":"Yang Li","orcid":"https://orcid.org/0000-0003-2480-1972"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I36399199","display_name":"Nanjing University of Science and Technology","ror":"https://ror.org/00xp9wg62","country_code":"CN","type":"education","lineage":["https://openalex.org/I36399199"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Yang Li","raw_affiliation_strings":["Department of Computational Medicine and Bioinformatics, University of Michigan , Ann Arbor, MI 48109-2218, USA","School of Computer Science and Engineering, Nanjing University of Science and Technology , Nanjing 210094, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Medicine and Bioinformatics, University of Michigan , Ann Arbor, MI 48109-2218, USA","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Nanjing University of Science and Technology , Nanjing 210094, China","institution_ids":["https://openalex.org/I36399199"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029914279","display_name":"Jun Hu","orcid":"https://orcid.org/0000-0001-9202-7515"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I36399199","display_name":"Nanjing University of Science and Technology","ror":"https://ror.org/00xp9wg62","country_code":"CN","type":"education","lineage":["https://openalex.org/I36399199"]}],"countries":["CN","US"],"is_corresponding":false,"raw_author_name":"Jun Hu","raw_affiliation_strings":["Department of Computational Medicine and Bioinformatics, University of Michigan , Ann Arbor, MI 48109-2218, USA","School of Computer Science and Engineering, Nanjing University of Science and Technology , Nanjing 210094, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Medicine and Bioinformatics, University of Michigan , Ann Arbor, MI 48109-2218, USA","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Nanjing University of Science and Technology , Nanjing 210094, China","institution_ids":["https://openalex.org/I36399199"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101510848","display_name":"Chengxin Zhang","orcid":"https://orcid.org/0000-0001-7290-1324"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chengxin Zhang","raw_affiliation_strings":["Department of Computational Medicine and Bioinformatics, University of Michigan , Ann Arbor, MI 48109-2218, USA"],"raw_orcid":"https://orcid.org/0000-0001-7290-1324","affiliations":[{"raw_affiliation_string":"Department of Computational Medicine and Bioinformatics, University of Michigan , Ann Arbor, MI 48109-2218, USA","institution_ids":["https://openalex.org/I27837315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008960436","display_name":"Dong\u2010Jun Yu","orcid":"https://orcid.org/0000-0002-6786-8053"},"institutions":[{"id":"https://openalex.org/I36399199","display_name":"Nanjing University of Science and Technology","ror":"https://ror.org/00xp9wg62","country_code":"CN","type":"education","lineage":["https://openalex.org/I36399199"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Dong-Jun Yu","raw_affiliation_strings":["School of Computer Science and Engineering, Nanjing University of Science and Technology , Nanjing 210094, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Nanjing University of Science and Technology , Nanjing 210094, China","institution_ids":["https://openalex.org/I36399199"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100354659","display_name":"Yang Zhang","orcid":"https://orcid.org/0000-0002-2739-1916"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yang Zhang","raw_affiliation_strings":["Department of Computational Medicine and Bioinformatics, University of Michigan , Ann Arbor, MI 48109-2218, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Medicine and Bioinformatics, University of Michigan , Ann Arbor, MI 48109-2218, USA","institution_ids":["https://openalex.org/I27837315"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5008960436","https://openalex.org/A5100354659"],"corresponding_institution_ids":["https://openalex.org/I27837315","https://openalex.org/I36399199"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":10.7707,"has_fulltext":true,"cited_by_count":182,"citation_normalized_percentile":{"value":0.99078647,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":100},"biblio":{"volume":"35","issue":"22","first_page":"4647","last_page":"4655"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9505000114440918,"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":0.9505000114440918,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.01360000018030405,"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":0.010099999606609344,"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/residual","display_name":"Residual","score":0.6833969950675964},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.6535791754722595},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.620402455329895},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5295064449310303},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.5157325863838196},{"id":"https://openalex.org/keywords/casp","display_name":"CASP","score":0.5094285607337952},{"id":"https://openalex.org/keywords/covariance-matrix","display_name":"Covariance matrix","score":0.5065950155258179},{"id":"https://openalex.org/keywords/convolutional-neural-network","display_name":"Convolutional neural network","score":0.44998666644096375},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4494738280773163},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.43980586528778076},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.4134588837623596},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.36657580733299255},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.32494688034057617},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12116503715515137}],"concepts":[{"id":"https://openalex.org/C155512373","wikidata":"https://www.wikidata.org/wiki/Q287450","display_name":"Residual","level":2,"score":0.6833969950675964},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.6535791754722595},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.620402455329895},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5295064449310303},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.5157325863838196},{"id":"https://openalex.org/C66153294","wikidata":"https://www.wikidata.org/wiki/Q899291","display_name":"CASP","level":4,"score":0.5094285607337952},{"id":"https://openalex.org/C185142706","wikidata":"https://www.wikidata.org/wiki/Q1134404","display_name":"Covariance matrix","level":2,"score":0.5065950155258179},{"id":"https://openalex.org/C81363708","wikidata":"https://www.wikidata.org/wiki/Q17084460","display_name":"Convolutional neural network","level":2,"score":0.44998666644096375},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4494738280773163},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.43980586528778076},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.4134588837623596},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.36657580733299255},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.32494688034057617},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12116503715515137},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":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/btz291","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz291","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/22/4647/30706660/btz291.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31070716","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31070716","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:6853658","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6853658","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/btz291","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz291","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/22/4647/30706660/btz291.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G155194203","display_name":null,"funder_award_id":"R01 GM116960","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G1579510488","display_name":null,"funder_award_id":"GM083107","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G1953852693","display_name":null,"funder_award_id":"ACI-1548562","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2540165657","display_name":null,"funder_award_id":"31628003","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3124692666","display_name":null,"funder_award_id":"R01 GM083107","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G367708065","display_name":null,"funder_award_id":"ACI-1548562","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3709464396","display_name":null,"funder_award_id":"-1548562","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3730782400","display_name":"XSEDE 2.0:  Integrating, Enabling and Enhancing National Cyberinfrastructure with Expanding Community Involvement","funder_award_id":"1548562","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G4509968318","display_name":null,"funder_award_id":"R01 AI134678","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G4975541918","display_name":"\u86cb\u767d\u8d28-\u914d\u4f53\u7ed1\u5b9a\u533a\u57df\u9884\u6d4b\u7684\u7279\u5f81\u62bd\u53d6\u53ca\u5b66\u4e60\u7b97\u6cd5\u7814\u7a76","funder_award_id":"61373062","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5396060342","display_name":null,"funder_award_id":"30916011327","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G553838990","display_name":null,"funder_award_id":"GM116960","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G6214695461","display_name":null,"funder_award_id":"61373062 and","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6395432519","display_name":null,"funder_award_id":"-1548562","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G6750188092","display_name":null,"funder_award_id":"ACI-1548562","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G7747661902","display_name":null,"funder_award_id":"DBI1564756","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8864257478","display_name":null,"funder_award_id":"DBI1564756","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8879126380","display_name":"\u5927\u89c4\u6a21\u591a\u6e90\u5f02\u8d28\u86cb\u767d\u8d28\u6570\u636e\u6316\u6398\u4e2d\u7684\u82e5\u5e72\u5173\u952e\u95ee\u9898\u7814\u7a76","funder_award_id":"61772273","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2944535254.pdf","grobid_xml":"https://content.openalex.org/works/W2944535254.grobid-xml"},"referenced_works_count":45,"referenced_works":["https://openalex.org/W216325278","https://openalex.org/W1625972580","https://openalex.org/W1903029394","https://openalex.org/W1906125546","https://openalex.org/W1979762151","https://openalex.org/W2008545402","https://openalex.org/W2013425283","https://openalex.org/W2015208937","https://openalex.org/W2043701535","https://openalex.org/W2048310584","https://openalex.org/W2051210555","https://openalex.org/W2097980499","https://openalex.org/W2104467962","https://openalex.org/W2113358325","https://openalex.org/W2114340287","https://openalex.org/W2115213105","https://openalex.org/W2119843684","https://openalex.org/W2128208871","https://openalex.org/W2131848438","https://openalex.org/W2132555912","https://openalex.org/W2136799255","https://openalex.org/W2137566700","https://openalex.org/W2161072217","https://openalex.org/W2166701319","https://openalex.org/W2171641243","https://openalex.org/W2194775991","https://openalex.org/W2280207768","https://openalex.org/W2395611524","https://openalex.org/W2551247304","https://openalex.org/W2571422352","https://openalex.org/W2600704321","https://openalex.org/W2618530766","https://openalex.org/W2754054476","https://openalex.org/W2765742208","https://openalex.org/W2766710027","https://openalex.org/W2780845733","https://openalex.org/W2801109052","https://openalex.org/W2949867299","https://openalex.org/W2951621517","https://openalex.org/W3098888484","https://openalex.org/W3162854230","https://openalex.org/W6640054144","https://openalex.org/W6687483927","https://openalex.org/W6729533798","https://openalex.org/W6998252217"],"related_works":["https://openalex.org/W2946599741","https://openalex.org/W2147472674","https://openalex.org/W2561391236","https://openalex.org/W1888349473","https://openalex.org/W2136856901","https://openalex.org/W3165545667","https://openalex.org/W4225106352","https://openalex.org/W47248631","https://openalex.org/W3171039768","https://openalex.org/W2058542300"],"abstract_inverted_index":{"MOTIVATION:":[0],"Contact-map":[1],"of":[2,10,15,65,84,98,119,141,147,156,178,190,197,207],"a":[3,49,82],"protein":[4,22,32,56,219,232],"sequence":[5,67,110],"dictates":[6],"the":[7,16,31,42,90,101,109,117,138,145,160,166,175,195,228],"global":[8],"topology":[9],"structural":[11],"fold.":[12],"Accurate":[13],"prediction":[14,105],"contact-map":[17,199],"is":[18,27,113],"thus":[19],"essential":[20],"to":[21,53,128],"3D":[23],"structure":[24,220],"prediction,":[25],"which":[26,112,213],"particularly":[28],"useful":[29],"for":[30,227],"sequences":[33],"that":[34,137,150,187],"do":[35],"not":[36],"have":[37],"close":[38],"homology":[39],"templates":[40],"in":[41,100,225],"Protein":[43],"Data":[44],"Bank.":[45],"RESULTS:":[46],"We":[47],"developed":[48],"new":[50],"method,":[51],"ResPRE,":[52],"predict":[54],"residue-level":[55],"contacts":[57],"using":[58],"inverse":[59],"covariance":[60,163],"matrix":[61,149],"(or":[62],"precision":[63,148],"matrix)":[64],"multiple":[66],"alignments":[68],"(MSAs)":[69],"through":[70],"deep":[71,129,179],"residual":[72,167],"convolutional":[73],"neural":[74,130,180],"network":[75,131,168,181],"training.":[76,132,182],"The":[77,201],"approach":[78],"was":[79,184],"tested":[80],"on":[81,218],"set":[83],"158":[85],"non-homologous":[86],"proteins":[87],"collected":[88],"from":[89,124],"CASP":[91],"experiments":[92],"and":[93,204,221,230,238],"achieved":[94],"an":[95],"average":[96],"accuracy":[97,196],"50.6%":[99],"top-L":[102],"long-range":[103],"contact":[104],"with":[106,159,169],"L":[107],"being":[108],"length,":[111],"11.7%":[114],"higher":[115],"than":[116],"best":[118],"other":[120],"state-of-the-art":[121],"approaches":[122],"ranging":[123],"coevolution":[125],"coupling":[126],"analysis":[127],"Detailed":[133],"data":[134,243],"analyses":[135],"show":[136],"major":[139],"advantage":[140],"ResPRE":[142,208],"lies":[143],"at":[144,246],"utilization":[146],"helps":[151],"rule":[152],"out":[153],"transitional":[154],"noises":[155],"contact-maps":[157],"compared":[158],"previously":[161],"used":[162],"matrix.":[164],"Meanwhile,":[165],"parallel":[170],"shortcut":[171],"layer":[172],"connections":[173],"increases":[174],"learning":[176],"ability":[177],"It":[183],"also":[185],"found":[186],"appropriate":[188],"collection":[189],"MSAs":[191],"can":[192],"further":[193],"improve":[194],"final":[198],"predictions.":[200],"standalone":[202],"package":[203],"online":[205],"server":[206],"are":[209,244],"made":[210],"freely":[211],"available,":[212],"should":[214],"bring":[215],"important":[216],"impact":[217],"function":[222],"modeling":[223],"studies":[224],"particular":[226],"distant-":[229],"non-homology":[231],"targets.":[233],"AVAILABILITY":[234],"AND":[235],"IMPLEMENTATION:":[236],"https://zhanglab.ccmb.med.umich.edu/ResPRE":[237],"https://github.com/leeyang/ResPRE.":[239],"SUPPLEMENTARY":[240],"INFORMATION:":[241],"Supplementary":[242],"available":[245],"Bioinformatics":[247],"online.":[248]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":16},{"year":2023,"cited_by_count":16},{"year":2022,"cited_by_count":33},{"year":2021,"cited_by_count":58},{"year":2020,"cited_by_count":38},{"year":2019,"cited_by_count":13}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}