{"id":"https://openalex.org/W4391381762","doi":"https://doi.org/10.1109/wsc60868.2023.10407580","title":"Coarse-Grained Simulations Of Dna And Rna Systems With Oxdna And Oxrna Models: Tutorial","display_name":"Coarse-Grained Simulations Of Dna And Rna Systems With Oxdna And Oxrna Models: Tutorial","publication_year":2023,"publication_date":"2023-12-10","ids":{"openalex":"https://openalex.org/W4391381762","doi":"https://doi.org/10.1109/wsc60868.2023.10407580"},"language":"en","primary_location":{"id":"doi:10.1109/wsc60868.2023.10407580","is_oa":false,"landing_page_url":"https://doi.org/10.1109/wsc60868.2023.10407580","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 Winter Simulation Conference (WSC)","raw_type":"proceedings-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/A5113108628","display_name":"Matthew L. Sample","orcid":null},"institutions":[{"id":"https://openalex.org/I55732556","display_name":"Arizona State University","ror":"https://ror.org/03efmqc40","country_code":"US","type":"education","lineage":["https://openalex.org/I55732556"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Matthew L. Sample","raw_affiliation_strings":["Arizona State University,Fulton School for Engineering of Matter, Transport, and Energy,Tempe,AZ,USA,85281"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Arizona State University,Fulton School for Engineering of Matter, Transport, and Energy,Tempe,AZ,USA,85281","institution_ids":["https://openalex.org/I55732556"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060668330","display_name":"Michael Matthies","orcid":"https://orcid.org/0000-0001-5979-1757"},"institutions":[{"id":"https://openalex.org/I55732556","display_name":"Arizona State University","ror":"https://ror.org/03efmqc40","country_code":"US","type":"education","lineage":["https://openalex.org/I55732556"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Matthies","raw_affiliation_strings":["Arizona State University,School of Molecular Sciences,Tempe,AZ,USA,85281"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Arizona State University,School of Molecular Sciences,Tempe,AZ,USA,85281","institution_ids":["https://openalex.org/I55732556"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5047645496","display_name":"Petr \u0160ulc","orcid":"https://orcid.org/0000-0003-1565-6769"},"institutions":[{"id":"https://openalex.org/I55732556","display_name":"Arizona State University","ror":"https://ror.org/03efmqc40","country_code":"US","type":"education","lineage":["https://openalex.org/I55732556"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Petr \u0160ulc","raw_affiliation_strings":["Arizona State University,School of Molecular Sciences,Tempe,AZ,USA,85281"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Arizona State University,School of Molecular Sciences,Tempe,AZ,USA,85281","institution_ids":["https://openalex.org/I55732556"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I55732556"],"apc_list":null,"apc_paid":null,"fwci":0.4218,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.67618808,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"91","last_page":"105"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10207","display_name":"Advanced biosensing and bioanalysis techniques","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/T10207","display_name":"Advanced biosensing and bioanalysis techniques","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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.9995999932289124,"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":0.9995999932289124,"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/computer-science","display_name":"Computer science","score":0.6884859800338745},{"id":"https://openalex.org/keywords/reading","display_name":"Reading (process)","score":0.4584779739379883},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3678901791572571}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6884859800338745},{"id":"https://openalex.org/C554936623","wikidata":"https://www.wikidata.org/wiki/Q199657","display_name":"Reading (process)","level":2,"score":0.4584779739379883},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3678901791572571},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/wsc60868.2023.10407580","is_oa":false,"landing_page_url":"https://doi.org/10.1109/wsc60868.2023.10407580","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2023 Winter Simulation Conference (WSC)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/2","score":0.6499999761581421,"display_name":"Zero hunger"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":41,"referenced_works":["https://openalex.org/W1548618691","https://openalex.org/W1568631168","https://openalex.org/W1578171303","https://openalex.org/W1966343698","https://openalex.org/W1985371657","https://openalex.org/W1989020100","https://openalex.org/W2009818318","https://openalex.org/W2013676609","https://openalex.org/W2013779383","https://openalex.org/W2026285337","https://openalex.org/W2035720425","https://openalex.org/W2038125628","https://openalex.org/W2065996552","https://openalex.org/W2077850544","https://openalex.org/W2084533660","https://openalex.org/W2086561953","https://openalex.org/W2126961173","https://openalex.org/W2129096474","https://openalex.org/W2135995702","https://openalex.org/W2269699967","https://openalex.org/W2788161247","https://openalex.org/W2950105622","https://openalex.org/W2962376770","https://openalex.org/W3013828192","https://openalex.org/W3092196702","https://openalex.org/W3101181551","https://openalex.org/W3104303939","https://openalex.org/W3105350764","https://openalex.org/W3106154480","https://openalex.org/W3112577130","https://openalex.org/W3154905905","https://openalex.org/W3157414663","https://openalex.org/W3162291125","https://openalex.org/W3173582189","https://openalex.org/W4211087439","https://openalex.org/W4281962041","https://openalex.org/W4295885870","https://openalex.org/W4317666112","https://openalex.org/W4321768931","https://openalex.org/W4403548604","https://openalex.org/W6778131176"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052","https://openalex.org/W4402327032","https://openalex.org/W2382290278"],"abstract_inverted_index":{"We":[0,58],"present":[1],"a":[2,20,75],"tutorial":[3,41,68],"on":[4,94],"setting-up":[5],"the":[6,65,80,84,98],"oxDNA":[7],"coarse-grained":[8],"model":[9,18,99],"for":[10],"simulations":[11],"of":[12,97],"DNA":[13],"and":[14,27,37,82,90],"RNA":[15],"nanotechnology.":[16],"The":[17,40],"is":[19,42],"popular":[21],"tool":[22],"used":[23],"both":[24,34],"by":[25],"theorists":[26],"experimentalists":[28],"to":[29,55],"simulate":[30],"nucleic":[31],"acid":[32],"systems":[33],"in":[35,63,103],"biology":[36],"nanotechnology":[38],"settings.":[39],"aimed":[43],"at":[44],"new":[45],"users":[46],"asking":[47],"\"Where":[48],"should":[49],"I":[50,53],"start":[51],"if":[52],"want":[54],"use":[56],"oxDNA\".":[57],"assume":[59],"no":[60],"prior":[61],"background":[62],"using":[64],"model.":[66],"This":[67],"shows":[69],"basic":[70],"examples":[71],"that":[72],"can":[73],"get":[74],"novice":[76],"user":[77,86],"started":[78],"with":[79],"model,":[81],"points":[83],"prospective":[85],"towards":[87],"additional":[88],"reading":[89],"online":[91],"resources":[92],"depending":[93],"which":[95],"aspect":[96],"they":[100],"are":[101],"interested":[102],"pursuing.":[104]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1}],"updated_date":"2026-06-26T08:34:08.712188","created_date":"2025-10-10T00:00:00"}
