{"id":"https://openalex.org/W2014581646","doi":"https://doi.org/10.1371/journal.pone.0031791","title":"Deciphering the Preference and Predicting the Viability of Circular Permutations in Proteins","display_name":"Deciphering the Preference and Predicting the Viability of Circular Permutations in Proteins","publication_year":2012,"publication_date":"2012-02-16","ids":{"openalex":"https://openalex.org/W2014581646","doi":"https://doi.org/10.1371/journal.pone.0031791","mag":"2014581646","pmid":"https://pubmed.ncbi.nlm.nih.gov/22359629","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/3281007"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pone.0031791","doi":"https://doi.org/10.1371/journal.pone.0031791","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pone.0031791","pdf_url":null,"source":{"id":"https://openalex.org/S202381698","display_name":"PLoS ONE","issn_l":"1932-6203","issn":["1932-6203"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-c","doyens","erih-plus","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS ONE","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1371/journal.pone.0031791","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075674494","display_name":"Wei\u2010Cheng Lo","orcid":"https://orcid.org/0000-0001-8865-5113","observed_orcids":["https://orcid.org/0000-0001-8865-5113"]},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I25846049","display_name":"National Tsing Hua University","ror":"https://ror.org/00zdnkx70","country_code":"TW","type":"education","lineage":["https://openalex.org/I25846049"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Wei-Cheng Lo","raw_affiliation_strings":["Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, Taiwan, People's Republic of China","Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu, Taiwan, People's Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, Taiwan, People's Republic of China","institution_ids":["https://openalex.org/I25846049"]},{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu, Taiwan, People's Republic of China","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017059517","display_name":"Tian Dai","orcid":"https://orcid.org/0000-0002-0696-3700","observed_orcids":["https://orcid.org/0000-0002-0696-3700"]},"institutions":[{"id":"https://openalex.org/I150468666","display_name":"Emory University","ror":"https://ror.org/03czfpz43","country_code":"US","type":"education","lineage":["https://openalex.org/I150468666"]},{"id":"https://openalex.org/I25846049","display_name":"National Tsing Hua University","ror":"https://ror.org/00zdnkx70","country_code":"TW","type":"education","lineage":["https://openalex.org/I25846049"]}],"countries":["TW","US"],"is_corresponding":false,"raw_author_name":"Tian Dai","raw_affiliation_strings":["Department of Biostatistics and Bioinformatics, Emory University, Atlanta, Georgia, United States of America","Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, Taiwan, People's Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics and Bioinformatics, Emory University, Atlanta, Georgia, United States of America","institution_ids":["https://openalex.org/I150468666"]},{"raw_affiliation_string":"Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, Taiwan, People's Republic of China","institution_ids":["https://openalex.org/I25846049"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083011380","display_name":"Yen\u2010Yi Liu","orcid":"https://orcid.org/0000-0001-8386-4418","observed_orcids":["https://orcid.org/0000-0001-8386-4418"]},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Yen-Yi Liu","raw_affiliation_strings":["Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu, Taiwan, People's Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu, Taiwan, People's Republic of China","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083642418","display_name":"Li-Fen Wang","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Li-Fen Wang","raw_affiliation_strings":["Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu, Taiwan, People's Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu, Taiwan, People's Republic of China","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110022757","display_name":"Jenn-Kang Hwang","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"Jenn-Kang Hwang","raw_affiliation_strings":["Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu, Taiwan, People's Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu, Taiwan, People's Republic of China","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5028741023","display_name":"Pingchiang C. Lyu","orcid":"https://orcid.org/0000-0002-6824-543X","observed_orcids":["https://orcid.org/0000-0002-6824-543X"]},"institutions":[{"id":"https://openalex.org/I25846049","display_name":"National Tsing Hua University","ror":"https://ror.org/00zdnkx70","country_code":"TW","type":"education","lineage":["https://openalex.org/I25846049"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"Ping-Chiang Lyu","raw_affiliation_strings":["Department of Life Sciences, National Tsing Hua University, Hsinchu, Taiwan, People's Republic of China","Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, Taiwan, People's Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Life Sciences, National Tsing Hua University, Hsinchu, Taiwan, People's Republic of China","institution_ids":["https://openalex.org/I25846049"]},{"raw_affiliation_string":"Institute of Bioinformatics and Structural Biology, National Tsing Hua University, Hsinchu, Taiwan, People's Republic of China","institution_ids":["https://openalex.org/I25846049"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5028741023","https://openalex.org/A5110022757"],"corresponding_institution_ids":["https://openalex.org/I148366613","https://openalex.org/I25846049"],"apc_list":{"value":2382,"currency":"USD","value_usd":2382},"apc_paid":{"value":2382,"currency":"USD","value_usd":2382},"fwci":0.4197,"has_fulltext":true,"cited_by_count":27,"citation_normalized_percentile":{"value":0.53850108,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":99},"biblio":{"volume":"7","issue":"2","first_page":"e31791","last_page":"e31791"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9970999956130981,"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":0.9970999956130981,"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":0.0017999999690800905,"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/T13326","display_name":"Biochemical and Structural Characterization","score":0.0007999999797903001,"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/circular-permutation","display_name":"circular permutation","score":0.9570000171661377},{"id":"https://openalex.org/keywords/protein-engineering","display_name":"protein engineering","score":0.4180000126361847},{"id":"https://openalex.org/keywords/protein-structure","display_name":"protein structure","score":0.5059999823570251},{"id":"https://openalex.org/keywords/protein-dynamics","display_name":"protein dynamics","score":0.7919999957084656},{"id":"https://openalex.org/keywords/machine-learning-prediction","display_name":"machine learning prediction","score":0.5849999785423279},{"id":"https://openalex.org/keywords/bifunctional-fusion-protein","display_name":"bifunctional fusion protein","score":0.921999990940094},{"id":"https://openalex.org/keywords/enzyme-engineering","display_name":"enzyme engineering","score":0.4059999883174896}],"concepts":[{"id":"https://openalex.org/C169258074","wikidata":"https://www.wikidata.org/wiki/Q245748","display_name":"Random forest","level":2,"score":0.5314857959747314},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.48370033502578735},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.452027291059494},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4371834993362427},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.4203781485557556},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.40579500794410706},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.36298221349716187},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.345269113779068},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3443491458892822},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.25756245851516724},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.16867604851722717},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1280803382396698}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","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":true},{"descriptor_ui":"D015202","descriptor_name":"Protein Engineering","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pone.0031791","doi":"https://doi.org/10.1371/journal.pone.0031791","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pone.0031791","pdf_url":null,"source":{"id":"https://openalex.org/S202381698","display_name":"PLoS ONE","issn_l":"1932-6203","issn":["1932-6203"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-c","doyens","erih-plus","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS ONE","raw_type":"journal-article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3281007","doi":null,"is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC3281007/","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC3281007/pdf/","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,"listed_in":[],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS One","raw_type":"Text"},{"id":"pmid:22359629","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22359629","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,"listed_in":[],"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":"PloS one","raw_type":"Journal Article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.790.8053","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.790.8053","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/6e/6e/pone.0031791.PMC3281007.pdf","raw_type":"text"},{"id":"pmh:oai:RePEc:plo:pone00:0031791","doi":null,"is_oa":false,"landing_page_url":"https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0031791","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},{"id":"pmh:oai:doaj.org/article:5e8c8367db834468837d2c010e8d15aa","doi":null,"is_oa":true,"landing_page_url":"https://doaj.org/article/5e8c8367db834468837d2c010e8d15aa","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS ONE, Vol 7, Iss 2, p e31791 (2012)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/128814","doi":null,"is_oa":true,"landing_page_url":"https://figshare.com/articles/Deciphering_the_Preference_and_Predicting_the_Viability_of_Circular_Permutations_in_Proteins/128814","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pone.0031791","doi":"https://doi.org/10.1371/journal.pone.0031791","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pone.0031791","pdf_url":null,"source":{"id":"https://openalex.org/S202381698","display_name":"PLoS ONE","issn_l":"1932-6203","issn":["1932-6203"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-c","doyens","erih-plus","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS ONE","raw_type":"journal-article"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321040","display_name":"National Science Council","ror":"https://ror.org/02kv4zf79"},{"id":"https://openalex.org/F4320321041","display_name":"Academia Sinica","ror":"https://ror.org/05bxb3784"},{"id":"https://openalex.org/F4320321528","display_name":"Shanghai Educational Development Foundation","ror":"https://ror.org/0220qvk04"},{"id":"https://openalex.org/F4320322724","display_name":"Ministry of Education, India","ror":"https://ror.org/048xjjh50"},{"id":"https://openalex.org/F4320323443","display_name":"National Chiao Tung University","ror":"https://ror.org/00se2k293"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2014581646.pdf","grobid_xml":"https://content.openalex.org/works/W2014581646.grobid-xml"},"referenced_works_count":95,"referenced_works":["https://openalex.org/W53898165","https://openalex.org/W1493807054","https://openalex.org/W1506728433","https://openalex.org/W1544273645","https://openalex.org/W1566309885","https://openalex.org/W1569208976","https://openalex.org/W1678387880","https://openalex.org/W1807939617","https://openalex.org/W1966280301","https://openalex.org/W1968830268","https://openalex.org/W1974544382","https://openalex.org/W1979915001","https://openalex.org/W1981860664","https://openalex.org/W1982633968","https://openalex.org/W1984473506","https://openalex.org/W1985595125","https://openalex.org/W1986944334","https://openalex.org/W1995938191","https://openalex.org/W1996490290","https://openalex.org/W2000377676","https://openalex.org/W2004360551","https://openalex.org/W2005797975","https://openalex.org/W2008708467","https://openalex.org/W2010739552","https://openalex.org/W2014296507","https://openalex.org/W2019433997","https://openalex.org/W2021646539","https://openalex.org/W2025767029","https://openalex.org/W2025988318","https://openalex.org/W2027747381","https://openalex.org/W2033111093","https://openalex.org/W2034011015","https://openalex.org/W2035467628","https://openalex.org/W2046790331","https://openalex.org/W2047962024","https://openalex.org/W2049540991","https://openalex.org/W2049631297","https://openalex.org/W2052262181","https://openalex.org/W2053366984","https://openalex.org/W2054130762","https://openalex.org/W2055152043","https://openalex.org/W2061188947","https://openalex.org/W2066094860","https://openalex.org/W2066141016","https://openalex.org/W2071167128","https://openalex.org/W2071989882","https://openalex.org/W2073106950","https://openalex.org/W2076443836","https://openalex.org/W2079552090","https://openalex.org/W2081912151","https://openalex.org/W2083674249","https://openalex.org/W2084168484","https://openalex.org/W2097917327","https://openalex.org/W2101017457","https://openalex.org/W2102245393","https://openalex.org/W2105199969","https://openalex.org/W2106116715","https://openalex.org/W2106847290","https://openalex.org/W2108508060","https://openalex.org/W2108700551","https://openalex.org/W2110407472","https://openalex.org/W2115339329","https://openalex.org/W2116449290","https://openalex.org/W2118233996","https://openalex.org/W2121934633","https://openalex.org/W2122854841","https://openalex.org/W2123775947","https://openalex.org/W2125979814","https://openalex.org/W2126511591","https://openalex.org/W2126912623","https://openalex.org/W2130479394","https://openalex.org/W2130920644","https://openalex.org/W2131227307","https://openalex.org/W2131626849","https://openalex.org/W2131845012","https://openalex.org/W2134589804","https://openalex.org/W2148101168","https://openalex.org/W2148471287","https://openalex.org/W2148931575","https://openalex.org/W2150083139","https://openalex.org/W2153635508","https://openalex.org/W2156125289","https://openalex.org/W2157199084","https://openalex.org/W2157335082","https://openalex.org/W2159888725","https://openalex.org/W2161899160","https://openalex.org/W2165459420","https://openalex.org/W2165887610","https://openalex.org/W2169515696","https://openalex.org/W2170501485","https://openalex.org/W2171190723","https://openalex.org/W2329835500","https://openalex.org/W2552312962","https://openalex.org/W3083273706","https://openalex.org/W3120421331"],"related_works":["https://openalex.org/W2031858991","https://openalex.org/W2125979814","https://openalex.org/W4309339614","https://openalex.org/W7095893323","https://openalex.org/W7098013674","https://openalex.org/W2997931702","https://openalex.org/W4395696589","https://openalex.org/W2130937162","https://openalex.org/W307956635","https://openalex.org/W4395443656"],"abstract_inverted_index":{"Circular":[0],"permutation":[1,129],"(CP)":[2],"refers":[3],"to":[4,15,29,41,48,158],"situations":[5],"in":[6,18,67,71,78,220,271,294],"which":[7,196],"the":[8,19,72,90,106,126,180,186,206,227,232,278,290],"termini":[9],"of":[10,92,105,112,119,188,242,259,267,292],"a":[11,59,79,85,117,210,214],"protein":[12,31,80,253],"are":[13,156,269],"relocated":[14],"other":[16],"positions":[17,167],"structure.":[20],"CP":[21,37,57,93,96,114,135,146,192,260,268,280,293],"occurs":[22],"naturally":[23],"and":[24,34,45,47,61,94,109,121,131,141,152,173,213,296],"has":[25],"been":[26,247],"artificially":[27],"created":[28],"study":[30],"function,":[32,46],"stability":[33],"folding.":[35],"Recently":[36],"is":[38,58,81,277],"increasingly":[39],"applied":[40],"engineer":[42],"enzyme":[43],"structure":[44],"create":[49],"bifunctional":[50],"fusion":[51],"proteins":[52],"unachievable":[53],"by":[54,145,225],"tandem":[55],"fusion.":[56],"complicated":[60],"expensive":[62],"technique.":[63],"An":[64],"intrinsic":[65],"difficulty":[66],"its":[68],"application":[69,291],"lies":[70],"fact":[73],"that":[74,155],"not":[75],"every":[76],"position":[77],"amenable":[82],"for":[83,249],"creating":[84],"viable":[86,191],"permutant.":[87],"To":[88],"examine":[89],"preferences":[91,266],"develop":[95],"viability":[97,281],"prediction":[98,194,237,282],"methods,":[99,123,201],"we":[100],"carried":[101],"out":[102],"comprehensive":[103],"analyses":[104],"sequence,":[107],"structural,":[108],"dynamical":[110],"properties":[111],"known":[113],"sites":[115],"using":[116,226],"variety":[118],"statistics":[120],"simulation":[122],"such":[124],"as":[125,231],"bootstrap":[127],"aggregating,":[128],"test":[130],"molecular":[132],"dynamics":[133],"simulations.":[134],"particularly":[136],"favors":[137],"Gly,":[138],"Pro,":[139],"Asp":[140],"Asn.":[142],"Positions":[143],"preferred":[144],"lie":[147],"within":[148,176],"coils,":[149],"loops,":[150],"turns,":[151],"at":[153],"residues":[154,174],"exposed":[157],"solvent,":[159],"weakly":[160],"hydrogen-bonded,":[161],"environmentally":[162],"unpacked,":[163],"or":[164,178],"flexible.":[165],"Disfavored":[166],"include":[168],"Cys,":[169],"bulky":[170],"hydrophobic":[171],"residues,":[172],"located":[175],"helices":[177],"near":[179],"protein's":[181],"core.":[182],"These":[183],"results":[184],"fostered":[185],"development":[187],"an":[189,240],"effective":[190],"site":[193],"system,":[195],"combined":[197],"four":[198],"machine":[199],"learning":[200],"e.g.,":[202],"artificial":[203],"neural":[204],"networks,":[205],"support":[207],"vector":[208],"machine,":[209],"random":[211],"forest,":[212],"hierarchical":[215],"feature":[216],"integration":[217],"procedure":[218],"developed":[219,275],"this":[221,236,272],"work.":[222],"As":[223],"assessed":[224],"hydrofolate":[228],"reductase":[229],"dataset":[230],"independent":[233],"evaluation":[234],"dataset,":[235],"system":[238,276],"achieved":[239],"AUC":[241],"0.9.":[243],"Large-scale":[244],"predictions":[245],"have":[246],"performed":[248],"nine":[250],"thousand":[251],"representative":[252],"structures;":[254],"several":[255],"new":[256],"potential":[257],"applications":[258],"were":[261],"thus":[262],"identified.":[263],"Many":[264],"unreported":[265],"revealed":[270],"study.":[273],"The":[274],"best":[279],"method":[283],"currently":[284],"available.":[285],"This":[286],"work":[287],"will":[288],"facilitate":[289],"research":[295],"biotechnology.":[297]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":4},{"year":2021,"cited_by_count":13},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2016,"cited_by_count":2},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-11-12T12:28:57.059296","created_date":"2016-06-24T00:00:00"}