{"id":"https://openalex.org/W2462141059","doi":"https://doi.org/10.1017/s0263574715001058","title":"A stochastic roadmap method to model protein structural transitions","display_name":"A stochastic roadmap method to model protein structural transitions","publication_year":2015,"publication_date":"2015-12-11","ids":{"openalex":"https://openalex.org/W2462141059","doi":"https://doi.org/10.1017/s0263574715001058","mag":"2462141059"},"language":"en","primary_location":{"id":"doi:10.1017/s0263574715001058","is_oa":false,"landing_page_url":"https://doi.org/10.1017/s0263574715001058","pdf_url":null,"source":{"id":"https://openalex.org/S92163612","display_name":"Robotica","issn_l":"0263-5747","issn":["0263-5747","1469-8668"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311721","host_organization_name":"Cambridge University Press","host_organization_lineage":["https://openalex.org/P4310311721","https://openalex.org/P4310311702"],"host_organization_lineage_names":["Cambridge University Press","University of Cambridge"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Robotica","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103139709","display_name":"Kevin Molloy","orcid":"https://orcid.org/0000-0002-9859-7604"},"institutions":[{"id":"https://openalex.org/I162714631","display_name":"George Mason University","ror":"https://ror.org/02jqj7156","country_code":"US","type":"education","lineage":["https://openalex.org/I162714631"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kevin Molloy","raw_affiliation_strings":["Department of Computer Science, George Mason University, Fairfax, 22030 VA, USA E-mails:"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, George Mason University, Fairfax, 22030 VA, USA E-mails:","institution_ids":["https://openalex.org/I162714631"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001102298","display_name":"Rudy Clausen","orcid":null},"institutions":[{"id":"https://openalex.org/I162714631","display_name":"George Mason University","ror":"https://ror.org/02jqj7156","country_code":"US","type":"education","lineage":["https://openalex.org/I162714631"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rudy Clausen","raw_affiliation_strings":["Department of Computer Science, George Mason University, Fairfax, 22030 VA, USA E-mails:"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, George Mason University, Fairfax, 22030 VA, USA E-mails:","institution_ids":["https://openalex.org/I162714631"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044722808","display_name":"Amarda Shehu","orcid":"https://orcid.org/0000-0001-5230-4610"},"institutions":[{"id":"https://openalex.org/I162714631","display_name":"George Mason University","ror":"https://ror.org/02jqj7156","country_code":"US","type":"education","lineage":["https://openalex.org/I162714631"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Amarda Shehu","raw_affiliation_strings":["Department of Bioengineering, George Mason University, Fairfax, 22030 VA, USA","Department of Computer Science, George Mason University, Fairfax, 22030 VA, USA E-mails:","School of Systems Biology, George Mason University, Fairfax, 20110 VA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, George Mason University, Fairfax, 22030 VA, USA","institution_ids":["https://openalex.org/I162714631"]},{"raw_affiliation_string":"Department of Computer Science, George Mason University, Fairfax, 22030 VA, USA E-mails:","institution_ids":["https://openalex.org/I162714631"]},{"raw_affiliation_string":"School of Systems Biology, George Mason University, Fairfax, 20110 VA, USA","institution_ids":["https://openalex.org/I162714631"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5044722808"],"corresponding_institution_ids":["https://openalex.org/I162714631"],"apc_list":null,"apc_paid":null,"fwci":1.5057,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.82982646,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"34","issue":"8","first_page":"1705","last_page":"1733"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9976000189781189,"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":0.9976000189781189,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9943000078201294,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.9936000108718872,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/realization","display_name":"Realization (probability)","score":0.7160041928291321},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5492857694625854},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.537981390953064},{"id":"https://openalex.org/keywords/type","display_name":"Type (biology)","score":0.48284560441970825},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.4559900760650635},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.43444278836250305},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.4120846390724182},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3651387393474579},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.31840938329696655},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.23814436793327332},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.16717830300331116},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14654752612113953},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.10078907012939453}],"concepts":[{"id":"https://openalex.org/C2781089630","wikidata":"https://www.wikidata.org/wiki/Q21856745","display_name":"Realization (probability)","level":2,"score":0.7160041928291321},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5492857694625854},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.537981390953064},{"id":"https://openalex.org/C2777299769","wikidata":"https://www.wikidata.org/wiki/Q3707858","display_name":"Type (biology)","level":2,"score":0.48284560441970825},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.4559900760650635},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.43444278836250305},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.4120846390724182},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3651387393474579},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.31840938329696655},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.23814436793327332},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.16717830300331116},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14654752612113953},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.10078907012939453},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1017/s0263574715001058","is_oa":false,"landing_page_url":"https://doi.org/10.1017/s0263574715001058","pdf_url":null,"source":{"id":"https://openalex.org/S92163612","display_name":"Robotica","issn_l":"0263-5747","issn":["0263-5747","1469-8668"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311721","host_organization_name":"Cambridge University Press","host_organization_lineage":["https://openalex.org/P4310311721","https://openalex.org/P4310311702"],"host_organization_lineage_names":["Cambridge University Press","University of Cambridge"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Robotica","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":114,"referenced_works":["https://openalex.org/W64641334","https://openalex.org/W585413800","https://openalex.org/W610636697","https://openalex.org/W848174273","https://openalex.org/W1486996222","https://openalex.org/W1653812874","https://openalex.org/W1762474618","https://openalex.org/W1798761798","https://openalex.org/W1970454429","https://openalex.org/W1975826167","https://openalex.org/W1977708375","https://openalex.org/W1977969550","https://openalex.org/W1979070806","https://openalex.org/W1983132551","https://openalex.org/W1986614779","https://openalex.org/W1992899488","https://openalex.org/W1995808589","https://openalex.org/W1998023125","https://openalex.org/W1998299443","https://openalex.org/W2003180932","https://openalex.org/W2003378159","https://openalex.org/W2004232253","https://openalex.org/W2004774286","https://openalex.org/W2005109853","https://openalex.org/W2010764164","https://openalex.org/W2013962367","https://openalex.org/W2016423785","https://openalex.org/W2017111955","https://openalex.org/W2017496672","https://openalex.org/W2028177564","https://openalex.org/W2029667189","https://openalex.org/W2031340110","https://openalex.org/W2031430816","https://openalex.org/W2032395235","https://openalex.org/W2033197339","https://openalex.org/W2033650210","https://openalex.org/W2035885031","https://openalex.org/W2037558767","https://openalex.org/W2040249893","https://openalex.org/W2041051514","https://openalex.org/W2041745660","https://openalex.org/W2042925105","https://openalex.org/W2044029432","https://openalex.org/W2045777307","https://openalex.org/W2046243123","https://openalex.org/W2046408940","https://openalex.org/W2048822589","https://openalex.org/W2049738344","https://openalex.org/W2051401615","https://openalex.org/W2058510025","https://openalex.org/W2062037031","https://openalex.org/W2062231783","https://openalex.org/W2063228215","https://openalex.org/W2063484479","https://openalex.org/W2066962978","https://openalex.org/W2067763399","https://openalex.org/W2071152222","https://openalex.org/W2072090246","https://openalex.org/W2073314907","https://openalex.org/W2075154176","https://openalex.org/W2075243501","https://openalex.org/W2077039367","https://openalex.org/W2077743314","https://openalex.org/W2079609481","https://openalex.org/W2080076400","https://openalex.org/W2082028745","https://openalex.org/W2083144176","https://openalex.org/W2083544350","https://openalex.org/W2083669917","https://openalex.org/W2085470091","https://openalex.org/W2086264514","https://openalex.org/W2087148323","https://openalex.org/W2090431424","https://openalex.org/W2092524565","https://openalex.org/W2092973995","https://openalex.org/W2100091931","https://openalex.org/W2103237643","https://openalex.org/W2110043143","https://openalex.org/W2110860622","https://openalex.org/W2116332105","https://openalex.org/W2120781005","https://openalex.org/W2122028042","https://openalex.org/W2125955464","https://openalex.org/W2128990851","https://openalex.org/W2129931931","https://openalex.org/W2130253098","https://openalex.org/W2133408527","https://openalex.org/W2135184154","https://openalex.org/W2142454421","https://openalex.org/W2142506069","https://openalex.org/W2142595184","https://openalex.org/W2143881980","https://openalex.org/W2145324047","https://openalex.org/W2146316980","https://openalex.org/W2149301682","https://openalex.org/W2149744037","https://openalex.org/W2153131823","https://openalex.org/W2156790586","https://openalex.org/W2159722616","https://openalex.org/W2164548935","https://openalex.org/W2166138676","https://openalex.org/W2170944677","https://openalex.org/W2219883856","https://openalex.org/W2408219863","https://openalex.org/W2913066018","https://openalex.org/W3142707146","https://openalex.org/W4237535270","https://openalex.org/W4252521233","https://openalex.org/W4285719527","https://openalex.org/W6602636144","https://openalex.org/W6659949018","https://openalex.org/W6665890407","https://openalex.org/W6667757674","https://openalex.org/W6756564037"],"related_works":["https://openalex.org/W2022544890","https://openalex.org/W2394097730","https://openalex.org/W2769996735","https://openalex.org/W4312353617","https://openalex.org/W2113405914","https://openalex.org/W2260963831","https://openalex.org/W4235249401","https://openalex.org/W2331305369","https://openalex.org/W2043523297","https://openalex.org/W2015200445"],"abstract_inverted_index":{"SUMMARY":[0],"Evidence":[1],"is":[2,42,84],"emerging":[3],"that":[4,81],"the":[5,25,46,59,82,91],"role":[6],"of":[7,49,58,72,93],"protein":[8,30,96],"structure":[9,97],"in":[10,18,37,68,75],"disease":[11],"needs":[12],"to":[13,23,44,64,86],"be":[14],"rethought.":[15],"Sequence":[16],"mutations":[17,94],"proteins":[19,41,73],"are":[20],"often":[21],"found":[22],"affect":[24],"rate":[26],"at":[27],"which":[28],"a":[29],"switches":[31],"between":[32],"structures.":[33],"Modeling":[34],"structural":[35,66],"transitions":[36,67],"wildtype":[38,69],"and":[39,70,98],"variant":[40],"central":[43],"understanding":[45],"molecular":[47],"basis":[48],"disease.":[50],"This":[51],"paper":[52],"investigates":[53],"an":[54],"efficient":[55],"algorithmic":[56],"realization":[57],"stochastic":[60],"roadmap":[61],"simulation":[62],"framework":[63],"model":[65],"variants":[71],"implicated":[74],"human":[76],"disorders.":[77],"Our":[78],"results":[79],"indicate":[80],"algorithm":[83],"able":[85],"extract":[87],"useful":[88],"information":[89],"on":[90,95],"impact":[92],"function.":[99]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":6}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}