{"id":"https://openalex.org/W3087071546","doi":"https://doi.org/10.1371/journal.pcbi.1007922","title":"All-atom simulation of the HET-s prion replication","display_name":"All-atom simulation of the HET-s prion replication","publication_year":2020,"publication_date":"2020-09-18","ids":{"openalex":"https://openalex.org/W3087071546","doi":"https://doi.org/10.1371/journal.pcbi.1007922","mag":"3087071546","pmid":"https://pubmed.ncbi.nlm.nih.gov/32946455"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1007922","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007922","pdf_url":null,"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://doi.org/10.1371/journal.pcbi.1007922","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5059342442","display_name":"Luca Terruzzi","orcid":"https://orcid.org/0000-0003-2491-0415"},"institutions":[{"id":"https://openalex.org/I193223587","display_name":"University of Trento","ror":"https://ror.org/05trd4x28","country_code":"IT","type":"education","lineage":["https://openalex.org/I193223587"]},{"id":"https://openalex.org/I4210117667","display_name":"Siena Biotech (Italy)","ror":"https://ror.org/02ka1d450","country_code":"IT","type":"company","lineage":["https://openalex.org/I4210117667"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Luca Terruzzi","raw_affiliation_strings":["Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Povo, Trento, Italy","Sibylla Biotech SRL, Verona, Italy"],"raw_orcid":"https://orcid.org/0000-0003-2491-0415","affiliations":[{"raw_affiliation_string":"Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Povo, Trento, Italy","institution_ids":["https://openalex.org/I193223587"]},{"raw_affiliation_string":"Sibylla Biotech SRL, Verona, Italy","institution_ids":["https://openalex.org/I4210117667"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061791864","display_name":"Giovanni Spagnolli","orcid":"https://orcid.org/0000-0002-0578-0558"},"institutions":[{"id":"https://openalex.org/I193223587","display_name":"University of Trento","ror":"https://ror.org/05trd4x28","country_code":"IT","type":"education","lineage":["https://openalex.org/I193223587"]},{"id":"https://openalex.org/I4210091790","display_name":"Dulbecco Telethon Institute","ror":"https://ror.org/00f7kfd14","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I4210091790","https://openalex.org/I4210154366"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Giovanni Spagnolli","raw_affiliation_strings":["Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Povo, Trento, Italy","Dulbecco Telethon Institute, University of Trento, Povo, Trento, Italy"],"raw_orcid":"https://orcid.org/0000-0002-0578-0558","affiliations":[{"raw_affiliation_string":"Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Povo, Trento, Italy","institution_ids":["https://openalex.org/I193223587"]},{"raw_affiliation_string":"Dulbecco Telethon Institute, University of Trento, Povo, Trento, Italy","institution_ids":["https://openalex.org/I4210091790","https://openalex.org/I193223587"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071691269","display_name":"Alberto Boldrini","orcid":"https://orcid.org/0000-0002-8519-0709"},"institutions":[{"id":"https://openalex.org/I193223587","display_name":"University of Trento","ror":"https://ror.org/05trd4x28","country_code":"IT","type":"education","lineage":["https://openalex.org/I193223587"]},{"id":"https://openalex.org/I4210117667","display_name":"Siena Biotech (Italy)","ror":"https://ror.org/02ka1d450","country_code":"IT","type":"company","lineage":["https://openalex.org/I4210117667"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Alberto Boldrini","raw_affiliation_strings":["Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Povo, Trento, Italy","Sibylla Biotech SRL, Verona, Italy"],"raw_orcid":"https://orcid.org/0000-0002-8519-0709","affiliations":[{"raw_affiliation_string":"Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Povo, Trento, Italy","institution_ids":["https://openalex.org/I193223587"]},{"raw_affiliation_string":"Sibylla Biotech SRL, Verona, Italy","institution_ids":["https://openalex.org/I4210117667"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050165716","display_name":"Jes\u00fas R. Requena","orcid":"https://orcid.org/0000-0003-1954-4975"},"institutions":[{"id":"https://openalex.org/I200284239","display_name":"Universidade de Santiago de Compostela","ror":"https://ror.org/030eybx10","country_code":"ES","type":"education","lineage":["https://openalex.org/I200284239"]},{"id":"https://openalex.org/I4210111807","display_name":"Center for Research in Molecular Medicine and Chronic Diseases","ror":"https://ror.org/0280bnq76","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210111807"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jes\u00fas R. Requena","raw_affiliation_strings":["CIMUS Biomedical Research Institute & Department of Medical Sciences, University of Santiago de Compostela-IDIS, Spain"],"raw_orcid":"https://orcid.org/0000-0003-1954-4975","affiliations":[{"raw_affiliation_string":"CIMUS Biomedical Research Institute & Department of Medical Sciences, University of Santiago de Compostela-IDIS, Spain","institution_ids":["https://openalex.org/I4210111807","https://openalex.org/I200284239"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056411994","display_name":"Emiliano Biasini","orcid":"https://orcid.org/0000-0002-3927-6341"},"institutions":[{"id":"https://openalex.org/I193223587","display_name":"University of Trento","ror":"https://ror.org/05trd4x28","country_code":"IT","type":"education","lineage":["https://openalex.org/I193223587"]},{"id":"https://openalex.org/I4210091790","display_name":"Dulbecco Telethon Institute","ror":"https://ror.org/00f7kfd14","country_code":"IT","type":"nonprofit","lineage":["https://openalex.org/I4210091790","https://openalex.org/I4210154366"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Emiliano Biasini","raw_affiliation_strings":["Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Povo, Trento, Italy","Dulbecco Telethon Institute, University of Trento, Povo, Trento, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Povo, Trento, Italy","institution_ids":["https://openalex.org/I193223587"]},{"raw_affiliation_string":"Dulbecco Telethon Institute, University of Trento, Povo, Trento, Italy","institution_ids":["https://openalex.org/I4210091790","https://openalex.org/I193223587"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5103089975","display_name":"Pietro Faccioli","orcid":"https://orcid.org/0000-0002-5546-5054"},"institutions":[{"id":"https://openalex.org/I193223587","display_name":"University of Trento","ror":"https://ror.org/05trd4x28","country_code":"IT","type":"education","lineage":["https://openalex.org/I193223587"]},{"id":"https://openalex.org/I4210093299","display_name":"Istituto Nazionale di Fisica Nucleare, Trento Institute for Fundamental Physics And Applications","ror":"https://ror.org/00nhs3j29","country_code":"IT","type":"facility","lineage":["https://openalex.org/I160013858","https://openalex.org/I193223587","https://openalex.org/I4210093299"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Pietro Faccioli","raw_affiliation_strings":["Department of Physics, University of Trento, Povo, Trento, Italy","INFN-TIFPA, University of Trento, Povo, Trento, Italy"],"raw_orcid":"https://orcid.org/0000-0002-5546-5054","affiliations":[{"raw_affiliation_string":"Department of Physics, University of Trento, Povo, Trento, Italy","institution_ids":["https://openalex.org/I193223587"]},{"raw_affiliation_string":"INFN-TIFPA, University of Trento, Povo, Trento, Italy","institution_ids":["https://openalex.org/I4210093299","https://openalex.org/I193223587"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5056411994","https://openalex.org/A5061791864","https://openalex.org/A5103089975"],"corresponding_institution_ids":["https://openalex.org/I193223587","https://openalex.org/I4210091790","https://openalex.org/I4210093299"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.6688,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.67882512,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"16","issue":"9","first_page":"e1007922","last_page":"e1007922"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11335","display_name":"Prion Diseases and Protein Misfolding","score":0.9998999834060669,"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/T11335","display_name":"Prion Diseases and Protein Misfolding","score":0.9998999834060669,"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/T10112","display_name":"HIV Research and Treatment","score":0.992900013923645,"subfield":{"id":"https://openalex.org/subfields/2406","display_name":"Virology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9811000227928162,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/replication","display_name":"Replication (statistics)","score":0.5819621682167053},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5575190186500549},{"id":"https://openalex.org/keywords/molecular-dynamics","display_name":"Molecular dynamics","score":0.5170010328292847},{"id":"https://openalex.org/keywords/mechanism","display_name":"Mechanism (biology)","score":0.49848103523254395},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.46103906631469727},{"id":"https://openalex.org/keywords/prion-protein","display_name":"Prion protein","score":0.457528680562973},{"id":"https://openalex.org/keywords/protein-folding","display_name":"Protein folding","score":0.4185943305492401},{"id":"https://openalex.org/keywords/amyloid","display_name":"Amyloid (mycology)","score":0.4158036708831787},{"id":"https://openalex.org/keywords/biophysics","display_name":"Biophysics","score":0.3776114881038666},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.288138747215271},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.23297205567359924},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.19503501057624817},{"id":"https://openalex.org/keywords/computational-chemistry","display_name":"Computational chemistry","score":0.14260146021842957},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.13130348920822144}],"concepts":[{"id":"https://openalex.org/C12590798","wikidata":"https://www.wikidata.org/wiki/Q3933199","display_name":"Replication (statistics)","level":2,"score":0.5819621682167053},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5575190186500549},{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.5170010328292847},{"id":"https://openalex.org/C89611455","wikidata":"https://www.wikidata.org/wiki/Q6804646","display_name":"Mechanism (biology)","level":2,"score":0.49848103523254395},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.46103906631469727},{"id":"https://openalex.org/C3019804061","wikidata":"https://www.wikidata.org/wiki/Q14881255","display_name":"Prion protein","level":3,"score":0.457528680562973},{"id":"https://openalex.org/C204328495","wikidata":"https://www.wikidata.org/wiki/Q847556","display_name":"Protein folding","level":2,"score":0.4185943305492401},{"id":"https://openalex.org/C2777633098","wikidata":"https://www.wikidata.org/wiki/Q2736051","display_name":"Amyloid (mycology)","level":2,"score":0.4158036708831787},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.3776114881038666},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.288138747215271},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.23297205567359924},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.19503501057624817},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.14260146021842957},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.13130348920822144},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","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/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005656","descriptor_name":"Fungal Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D005656","descriptor_name":"Fungal Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D005656","descriptor_name":"Fungal Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D005656","descriptor_name":"Fungal Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D005656","descriptor_name":"Fungal Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D005656","descriptor_name":"Fungal Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011328","descriptor_name":"Prions","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011328","descriptor_name":"Prions","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011328","descriptor_name":"Prions","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D011328","descriptor_name":"Prions","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011328","descriptor_name":"Prions","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011328","descriptor_name":"Prions","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"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":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017510","descriptor_name":"Protein Folding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":8,"locations":[{"id":"doi:10.1371/journal.pcbi.1007922","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007922","pdf_url":null,"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:32946455","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32946455","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:RePEc:plo:pcbi00:1007922","is_oa":false,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1007922","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,"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:boa.unimib.it:10281/405608","is_oa":true,"landing_page_url":"https://hdl.handle.net/10281/405608","pdf_url":null,"source":{"id":"https://openalex.org/S4306401259","display_name":"BOA (University of Milano-Bicocca)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I66752286","host_organization_name":"University of Milano-Bicocca","host_organization_lineage":["https://openalex.org/I66752286"],"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":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:4f8df2b38c4b4568ac8a7643c14a9c38","is_oa":true,"landing_page_url":"https://doaj.org/article/4f8df2b38c4b4568ac8a7643c14a9c38","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 16, Iss 9, p e1007922 (2020)","raw_type":"article"},{"id":"pmh:oai:iris.unitn.it:11572/279318","is_oa":true,"landing_page_url":"https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1007922&rev=2","pdf_url":null,"source":{"id":"https://openalex.org/S4306401913","display_name":"Institutional Research Information System (Universit\u00e0 degli Studi di Trento)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I193223587","host_organization_name":"University of Trento","host_organization_lineage":["https://openalex.org/I193223587"],"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":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:iris.unitn.it:11572/464025","is_oa":true,"landing_page_url":"https://hdl.handle.net/11572/464025","pdf_url":null,"source":{"id":"https://openalex.org/S4306401913","display_name":"Institutional Research Information System (Universit\u00e0 degli Studi di Trento)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I193223587","host_organization_name":"University of Trento","host_organization_lineage":["https://openalex.org/I193223587"],"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":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7526898","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7526898","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.1007922","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007922","pdf_url":null,"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":[{"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15","score":0.6399999856948853}],"awards":[{"id":"https://openalex.org/G5095687851","display_name":null,"funder_award_id":"TCP14009","funder_id":"https://openalex.org/F4320321179","funder_display_name":"Fondazione Telethon"}],"funders":[{"id":"https://openalex.org/F4320321179","display_name":"Fondazione Telethon","ror":"https://ror.org/04xraxn18"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W1965555277","https://openalex.org/W1979138426","https://openalex.org/W1992198654","https://openalex.org/W2007217766","https://openalex.org/W2009493914","https://openalex.org/W2013679718","https://openalex.org/W2020388963","https://openalex.org/W2036108598","https://openalex.org/W2048253059","https://openalex.org/W2059158666","https://openalex.org/W2067236515","https://openalex.org/W2076324524","https://openalex.org/W2081402049","https://openalex.org/W2092435564","https://openalex.org/W2110894701","https://openalex.org/W2123751367","https://openalex.org/W2128572087","https://openalex.org/W2141920771","https://openalex.org/W2150682434","https://openalex.org/W2158476854","https://openalex.org/W2165414288","https://openalex.org/W2171268876","https://openalex.org/W2555870966","https://openalex.org/W2577163397","https://openalex.org/W2742509058","https://openalex.org/W2788791557","https://openalex.org/W2884326923","https://openalex.org/W2892113269","https://openalex.org/W2960300103","https://openalex.org/W2964345508","https://openalex.org/W2968426314","https://openalex.org/W2986996910","https://openalex.org/W3102014463","https://openalex.org/W6641869264"],"related_works":["https://openalex.org/W4205713785","https://openalex.org/W3016766501","https://openalex.org/W2901033488","https://openalex.org/W2031325922","https://openalex.org/W3086458689","https://openalex.org/W4287666211","https://openalex.org/W2898161671","https://openalex.org/W2249859249","https://openalex.org/W2081303393","https://openalex.org/W2088094466"],"abstract_inverted_index":{"Prions":[0],"are":[1,63,175],"self-replicative":[2],"protein":[3],"particles":[4],"lacking":[5],"nucleic":[6],"acids.":[7],"Originally":[8],"discovered":[9],"for":[10,75,170],"causing":[11],"infectious":[12],"neurodegenerative":[13],"disorders,":[14],"they":[15],"have":[16],"also":[17],"been":[18],"found":[19],"to":[20,48,66,111,155],"play":[21],"several":[22],"physiological":[23,167],"roles":[24],"in":[25,121,222],"a":[26,35,90,108,137,166,184,194,231],"variety":[27],"of":[28,38,44,54,70,103,129,136,139,147,159,164,188,209],"species.":[29],"Functional":[30],"and":[31,106,142,196],"pathogenic":[32],"prions":[33,210,226],"share":[34,217],"common":[36,218],"mechanism":[37,187],"replication,":[39,77],"characterized":[40],"by":[41,50,132,212],"the":[42,52,71,100,127,134,145,157,160,207],"ability":[43],"an":[45],"amyloid":[46],"conformer":[47],"propagate":[49,227],"inducing":[51],"conversion":[53],"its":[55],"physiological,":[56],"soluble":[57],"counterpart.":[58],"Since":[59],"time-resolved":[60],"biophysical":[61],"experiments":[62],"currently":[64],"unable":[65],"provide":[67],"full":[68],"reconstruction":[69,179],"physico-chemical":[72],"mechanisms":[73],"responsible":[74],"prion":[76,113,161,169],"one":[78],"must":[79],"rely":[80],"on":[81],"computer":[82],"simulations.":[83,150],"In":[84,220],"this":[85],"work,":[86],"we":[87,125,152],"show":[88],"that":[89,206],"recently":[91],"developed":[92],"algorithm":[93],"called":[94],"Self-Consistent":[95],"Path":[96],"Sampling":[97],"(SCPS)":[98],"overcomes":[99],"computational":[101],"limitations":[102],"plain":[104,148],"MD":[105,149],"provides":[107],"viable":[109],"tool":[110],"investigate":[112,156],"replication":[114,158],"processes":[115],"using":[116,193],"state-of-the-art":[117],"all-atom":[118],"force":[119],"fields":[120],"explicit":[122],"solvent.":[123],"First,":[124],"validate":[126],"reliability":[128],"SCPS":[130,154],"simulations":[131],"characterizing":[133],"folding":[135],"class":[138],"small":[140],"proteins":[141,215],"comparing":[143],"against":[144],"results":[146,204],"Next,":[151],"use":[153],"forming":[162],"domain":[163],"HET-s,":[165],"fungal":[168],"which":[171],"high-resolution":[172],"structural":[173],"data":[174],"available.":[176],"Our":[177],"atomistic":[178],"shows":[180],"remarkable":[181],"similarities":[182],"with":[183],"previously":[185],"reported":[186],"mammalian":[189],"PrPSc":[190],"propagation":[191,208],"obtained":[192],"simpler":[195],"more":[197],"approximate":[198],"path":[199],"sampling":[200],"algorithm.":[201],"Together,":[202],"these":[203,224],"suggest":[205],"generated":[211],"evolutionary":[213],"distant":[214],"may":[216],"features.":[219],"particular,":[221],"both":[223],"cases,":[225],"their":[228],"conformation":[229],"through":[230],"very":[232],"similar":[233],"templating":[234],"mechanism.":[235]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":1}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}
