{"id":"https://openalex.org/W2951264695","doi":"https://doi.org/10.1371/journal.pcbi.1003569","title":"A Coarse-Grained Elastic Network Atom Contact Model and Its Use in the Simulation of Protein Dynamics and the Prediction of the Effect of Mutations","display_name":"A Coarse-Grained Elastic Network Atom Contact Model and Its Use in the Simulation of Protein Dynamics and the Prediction of the Effect of Mutations","publication_year":2014,"publication_date":"2014-04-24","ids":{"openalex":"https://openalex.org/W2951264695","doi":"https://doi.org/10.1371/journal.pcbi.1003569","mag":"2951264695","pmid":"https://pubmed.ncbi.nlm.nih.gov/24762569"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1003569","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003569","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003569&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"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 Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003569&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5014346521","display_name":"Vincent Frappier","orcid":"https://orcid.org/0000-0002-4281-3128"},"institutions":[{"id":"https://openalex.org/I135117807","display_name":"Universit\u00e9 de Sherbrooke","ror":"https://ror.org/00kybxq39","country_code":"CA","type":"education","lineage":["https://openalex.org/I135117807"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Vincent Frappier","raw_affiliation_strings":["Department of Biochemistry, Faculty of Medicine and Health Sciences, Universit\u00e9 de Sherbrooke, Sherbrooke, Quebec, Canada"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry, Faculty of Medicine and Health Sciences, Universit\u00e9 de Sherbrooke, Sherbrooke, Quebec, Canada","institution_ids":["https://openalex.org/I135117807"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5019812910","display_name":"Rafa\u00ebl Najmanovich","orcid":"https://orcid.org/0000-0002-6971-7224"},"institutions":[{"id":"https://openalex.org/I135117807","display_name":"Universit\u00e9 de Sherbrooke","ror":"https://ror.org/00kybxq39","country_code":"CA","type":"education","lineage":["https://openalex.org/I135117807"]}],"countries":["CA"],"is_corresponding":true,"raw_author_name":"Rafael J. Najmanovich","raw_affiliation_strings":["Department of Biochemistry, Faculty of Medicine and Health Sciences, Universit\u00e9 de Sherbrooke, Sherbrooke, Quebec, Canada"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry, Faculty of Medicine and Health Sciences, Universit\u00e9 de Sherbrooke, Sherbrooke, Quebec, Canada","institution_ids":["https://openalex.org/I135117807"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5019812910"],"corresponding_institution_ids":["https://openalex.org/I135117807"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":3.5653,"has_fulltext":true,"cited_by_count":110,"citation_normalized_percentile":{"value":0.93744165,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"10","issue":"4","first_page":"e1003569","last_page":"e1003569"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":1.0,"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":1.0,"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/T11162","display_name":"Enzyme Structure and Function","score":0.9965000152587891,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9937999844551086,"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/molecular-dynamics","display_name":"Molecular dynamics","score":0.5693225860595703},{"id":"https://openalex.org/keywords/dynamics","display_name":"Dynamics (music)","score":0.4696979522705078},{"id":"https://openalex.org/keywords/statistical-physics","display_name":"Statistical physics","score":0.4437426030635834},{"id":"https://openalex.org/keywords/protein-interaction-networks","display_name":"Protein Interaction Networks","score":0.43280795216560364},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.41080960631370544},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.35792362689971924},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.3462318778038025},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.321159303188324},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.3008887767791748},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.23923948407173157},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.21135622262954712},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.19400805234909058},{"id":"https://openalex.org/keywords/protein\u2013protein-interaction","display_name":"Protein\u2013protein interaction","score":0.18516215682029724},{"id":"https://openalex.org/keywords/computational-chemistry","display_name":"Computational chemistry","score":0.12248274683952332}],"concepts":[{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.5693225860595703},{"id":"https://openalex.org/C145912823","wikidata":"https://www.wikidata.org/wiki/Q113558","display_name":"Dynamics (music)","level":2,"score":0.4696979522705078},{"id":"https://openalex.org/C121864883","wikidata":"https://www.wikidata.org/wiki/Q677916","display_name":"Statistical physics","level":1,"score":0.4437426030635834},{"id":"https://openalex.org/C2909613950","wikidata":"https://www.wikidata.org/wiki/Q158695","display_name":"Protein Interaction Networks","level":3,"score":0.43280795216560364},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.41080960631370544},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.35792362689971924},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.3462318778038025},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.321159303188324},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.3008887767791748},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.23923948407173157},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.21135622262954712},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.19400805234909058},{"id":"https://openalex.org/C11804247","wikidata":"https://www.wikidata.org/wiki/Q896177","display_name":"Protein\u2013protein interaction","level":2,"score":0.18516215682029724},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.12248274683952332},{"id":"https://openalex.org/C46141821","wikidata":"https://www.wikidata.org/wiki/Q209402","display_name":"Nuclear magnetic resonance","level":1,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003461","descriptor_name":"Crystallography","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003461","descriptor_name":"Crystallography","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003461","descriptor_name":"Crystallography","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003461","descriptor_name":"Crystallography","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004548","descriptor_name":"Elasticity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004548","descriptor_name":"Elasticity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004548","descriptor_name":"Elasticity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004548","descriptor_name":"Elasticity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1371/journal.pcbi.1003569","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003569","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003569&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"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 Computational Biology","raw_type":"journal-article"},{"id":"pmid:24762569","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24762569","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:033ae2d5bb2241dbb2053e8725f9c440","is_oa":true,"landing_page_url":"https://doaj.org/article/033ae2d5bb2241dbb2053e8725f9c440","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"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 Computational Biology, Vol 10, Iss 4, p e1003569 (2014)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2979338","is_oa":true,"landing_page_url":"http://europepmc.org/articles/PMC3998880","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/1007336","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/_A_Coarse_Grained_Elastic_Network_Atom_Contact_Model_and_Its_Use_in_the_Simulation_of_Protein_Dynamics_and_the_Prediction_of_the_Effect_of_Mutations_/1007336","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,"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"},{"id":"pmh:oai:pubmedcentral.nih.gov:3998880","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3998880","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1003569","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1003569","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1003569&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"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 Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.8999999761581421,"display_name":"Affordable and clean energy","id":"https://metadata.un.org/sdg/7"}],"awards":[{"id":"https://openalex.org/G6282788884","display_name":null,"funder_award_id":"Canadian Institutes of Health","funder_id":"https://openalex.org/F4320334506","funder_display_name":"Canadian Institutes of Health Research"}],"funders":[{"id":"https://openalex.org/F4320334506","display_name":"Canadian Institutes of Health Research","ror":"https://ror.org/01gavpb45"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2951264695.pdf","grobid_xml":"https://content.openalex.org/works/W2951264695.grobid-xml"},"referenced_works_count":88,"referenced_works":["https://openalex.org/W610636697","https://openalex.org/W1530533460","https://openalex.org/W1607931568","https://openalex.org/W1964840468","https://openalex.org/W1966261802","https://openalex.org/W1968324646","https://openalex.org/W1968407616","https://openalex.org/W1977629193","https://openalex.org/W1985006546","https://openalex.org/W1989814214","https://openalex.org/W1997310186","https://openalex.org/W2000609328","https://openalex.org/W2008035364","https://openalex.org/W2021646539","https://openalex.org/W2023490488","https://openalex.org/W2028130802","https://openalex.org/W2033350048","https://openalex.org/W2039735678","https://openalex.org/W2044114335","https://openalex.org/W2044157091","https://openalex.org/W2048822589","https://openalex.org/W2049208809","https://openalex.org/W2050059289","https://openalex.org/W2050454782","https://openalex.org/W2050712545","https://openalex.org/W2056053449","https://openalex.org/W2058101188","https://openalex.org/W2058206198","https://openalex.org/W2061843940","https://openalex.org/W2062950273","https://openalex.org/W2063962473","https://openalex.org/W2065864578","https://openalex.org/W2068128475","https://openalex.org/W2069777230","https://openalex.org/W2070701334","https://openalex.org/W2071558150","https://openalex.org/W2079199763","https://openalex.org/W2081211861","https://openalex.org/W2082912027","https://openalex.org/W2087284052","https://openalex.org/W2088906583","https://openalex.org/W2093221728","https://openalex.org/W2093916754","https://openalex.org/W2099672241","https://openalex.org/W2100139545","https://openalex.org/W2101017457","https://openalex.org/W2101244907","https://openalex.org/W2102449622","https://openalex.org/W2106988671","https://openalex.org/W2109685531","https://openalex.org/W2109872885","https://openalex.org/W2111585378","https://openalex.org/W2113994268","https://openalex.org/W2117897510","https://openalex.org/W2117897850","https://openalex.org/W2125304058","https://openalex.org/W2125626635","https://openalex.org/W2125677968","https://openalex.org/W2130590409","https://openalex.org/W2132540199","https://openalex.org/W2136513422","https://openalex.org/W2137170709","https://openalex.org/W2141218040","https://openalex.org/W2144857097","https://openalex.org/W2150185619","https://openalex.org/W2153561236","https://openalex.org/W2158349714","https://openalex.org/W2158957954","https://openalex.org/W2159275700","https://openalex.org/W2160544821","https://openalex.org/W2161644181","https://openalex.org/W2164507558","https://openalex.org/W2165154486","https://openalex.org/W2166880790","https://openalex.org/W2169144574","https://openalex.org/W2172034373","https://openalex.org/W2201713963","https://openalex.org/W2407287612","https://openalex.org/W2408144575","https://openalex.org/W2949670980","https://openalex.org/W2952267103","https://openalex.org/W3000525006","https://openalex.org/W4211042693","https://openalex.org/W4245744705","https://openalex.org/W4246527205","https://openalex.org/W4253248423","https://openalex.org/W4321317585","https://openalex.org/W6675010077"],"related_works":["https://openalex.org/W1773535258","https://openalex.org/W2946599741","https://openalex.org/W2593264178","https://openalex.org/W3171039768","https://openalex.org/W2136856901","https://openalex.org/W2368468053","https://openalex.org/W2058542300","https://openalex.org/W2043066834","https://openalex.org/W1564749278","https://openalex.org/W2294851134"],"abstract_inverted_index":{"Normal":[0],"mode":[1],"analysis":[2],"(NMA)":[3],"methods":[4,20,62,79,148,152,167,186,218,239,266],"are":[5,21,187,267],"widely":[6],"used":[7,28],"to":[8,29,93,124,234,255],"study":[9],"dynamic":[10],"aspects":[11],"of":[12,18,26,36,128,132,139,156,171,176,179,197,214,226,229,238,242,251,257,272],"protein":[13,31,94,182],"structures.":[14],"Two":[15],"critical":[16],"components":[17],"NMA":[19,166,217],"coarse-graining":[22],"in":[23,49,153,173,240],"the":[24,34,71,126,129,137,154,169,174,177,195,224,227,249,258,270],"level":[25],"simplification":[27],"represent":[30],"structures":[32],"and":[33,47,66,83,119,149,219,244,275],"choice":[35],"potential":[37,108],"energy":[38,109],"functional":[39],"form.":[40],"There":[41],"is":[42,142,204,253,278],"a":[43,107,113,162,211,220,235],"trade-off":[44],"between":[45],"speed":[46],"accuracy":[48,243,250],"different":[50],"choices.":[51],"In":[52],"one":[53,55],"extreme":[54],"finds":[56],"accurate":[57],"but":[58],"slow":[59],"molecular-dynamics":[60],"based":[61,87,188,199,205],"with":[63,80,168],"all-atom":[64],"representations":[65,82],"detailed":[67],"atom":[68],"potentials.":[69],"On":[70],"other":[72],"extreme,":[73],"fast":[74,144],"elastic":[75],"network":[76],"model":[77],"(ENM)":[78],"C\u03b1-only":[81],"simplified":[84],"potentials":[85],"that":[86,105,111,248,256,264,276],"on":[88,134,181,189,200,206],"geometry":[89],"alone,":[90],"thus":[91,120],"oblivious":[92],"sequence.":[95],"Here":[96,159],"we":[97,160],"present":[98],"ENCoM,":[99,198],"an":[100],"Elastic":[101],"Network":[102],"Contact":[103],"Model":[104],"employs":[106],"function":[110],"includes":[112],"pairwise":[114],"atom-type":[115],"non-bonded":[116],"interaction":[117],"term":[118],"makes":[121],"it":[122],"possible":[123],"consider":[125],"effect":[127,178,228],"specific":[130],"nature":[131],"amino-acids":[133],"dynamics":[135],"within":[136],"context":[138],"NMA.":[140],"ENCoM":[141,172,233,252,277],"as":[143,145],"existing":[146,185,260,265],"ENM":[147],"outperforms":[150],"such":[151],"generation":[155],"conformational":[157],"ensembles.":[158],"introduce":[161],"new":[163],"application":[164,215],"for":[165,216,223],"use":[170,196],"prediction":[175,225,271],"mutations":[180,274],"stability.":[183],"While":[184],"machine":[190],"learning":[191],"or":[192],"enthalpic":[193],"considerations,":[194],"vibrational":[201],"normal":[202],"modes,":[203],"entropic":[207],"considerations.":[208],"This":[209],"represents":[210],"novel":[212,221],"area":[213],"approach":[222],"mutations.":[230,284],"We":[231,246,262],"compare":[232],"large":[236],"number":[237],"terms":[241],"self-consistency.":[245],"show":[247,263],"comparable":[254],"best":[259],"methods.":[261],"biased":[268,280],"towards":[269],"destabilizing":[273],"less":[279],"at":[281],"predicting":[282],"stabilizing":[283]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":11},{"year":2022,"cited_by_count":17},{"year":2021,"cited_by_count":13},{"year":2020,"cited_by_count":14},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":10},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":7},{"year":2015,"cited_by_count":6},{"year":2014,"cited_by_count":5}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}