{"id":"https://openalex.org/W2743171228","doi":"https://doi.org/10.3233/fi-2017-1571","title":"Oritatami System; a Survey and the Impossibility of Simple Simulation at Small Delays","display_name":"Oritatami System; a Survey and the Impossibility of Simple Simulation at Small Delays","publication_year":2017,"publication_date":"2017-08-09","ids":{"openalex":"https://openalex.org/W2743171228","doi":"https://doi.org/10.3233/fi-2017-1571","mag":"2743171228"},"language":"en","primary_location":{"id":"doi:10.3233/fi-2017-1571","is_oa":false,"landing_page_url":"https://doi.org/10.3233/fi-2017-1571","pdf_url":null,"source":{"id":"https://openalex.org/S39012697","display_name":"Fundamenta Informaticae","issn_l":"0169-2968","issn":["0169-2968","1875-8681"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Fundamenta Informaticae","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/A5050043213","display_name":"Trent A. Rogers","orcid":"https://orcid.org/0000-0003-4124-0927"},"institutions":[{"id":"https://openalex.org/I78715868","display_name":"University of Arkansas at Fayetteville","ror":"https://ror.org/05jbt9m15","country_code":"US","type":"education","lineage":["https://openalex.org/I78715868"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Trent A. Rogers","raw_affiliation_strings":["Department of Computer Science and Computer Engineering, University of Arkansas, USA. tar003@uark.edu"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Computer Engineering, University of Arkansas, USA. tar003@uark.edu","institution_ids":["https://openalex.org/I78715868"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5002387043","display_name":"Shinnosuke Seki","orcid":"https://orcid.org/0000-0002-0276-3322"},"institutions":[{"id":"https://openalex.org/I20529979","display_name":"University of Electro-Communications","ror":"https://ror.org/02x73b849","country_code":"JP","type":"education","lineage":["https://openalex.org/I20529979"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Shinnosuke Seki","raw_affiliation_strings":["Department of Computer and Network Engineering, The University of Electro-Communications, 1-5-1 Chofugaoka, Chofu, Tokyo, 1828585, Japan. s.seki@uec.ac.jp"],"affiliations":[{"raw_affiliation_string":"Department of Computer and Network Engineering, The University of Electro-Communications, 1-5-1 Chofugaoka, Chofu, Tokyo, 1828585, Japan. s.seki@uec.ac.jp","institution_ids":["https://openalex.org/I20529979"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5050043213"],"corresponding_institution_ids":["https://openalex.org/I78715868"],"apc_list":null,"apc_paid":null,"fwci":0.5317,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.64644902,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"154","issue":"1-4","first_page":"359","last_page":"372"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12029","display_name":"DNA and Biological Computing","score":0.9972000122070312,"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/T12029","display_name":"DNA and Biological Computing","score":0.9972000122070312,"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/T12162","display_name":"Cellular Automata and Applications","score":0.996999979019165,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12784","display_name":"Modular Robots and Swarm Intelligence","score":0.9869999885559082,"subfield":{"id":"https://openalex.org/subfields/2210","display_name":"Mechanical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6537029147148132},{"id":"https://openalex.org/keywords/impossibility","display_name":"Impossibility","score":0.6432338356971741},{"id":"https://openalex.org/keywords/simple","display_name":"Simple (philosophy)","score":0.6394667625427246},{"id":"https://openalex.org/keywords/folding","display_name":"Folding (DSP implementation)","score":0.5373472571372986},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.13755115866661072}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6537029147148132},{"id":"https://openalex.org/C2776261394","wikidata":"https://www.wikidata.org/wiki/Q315562","display_name":"Impossibility","level":2,"score":0.6432338356971741},{"id":"https://openalex.org/C2780586882","wikidata":"https://www.wikidata.org/wiki/Q7520643","display_name":"Simple (philosophy)","level":2,"score":0.6394667625427246},{"id":"https://openalex.org/C2776545253","wikidata":"https://www.wikidata.org/wiki/Q5464292","display_name":"Folding (DSP implementation)","level":2,"score":0.5373472571372986},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.13755115866661072},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.3233/fi-2017-1571","is_oa":false,"landing_page_url":"https://doi.org/10.3233/fi-2017-1571","pdf_url":null,"source":{"id":"https://openalex.org/S39012697","display_name":"Fundamenta Informaticae","issn_l":"0169-2968","issn":["0169-2968","1875-8681"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310318577","host_organization_name":"IOS Press","host_organization_lineage":["https://openalex.org/P4310318577"],"host_organization_lineage_names":["IOS Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Fundamenta Informaticae","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":14,"referenced_works":["https://openalex.org/W119925751","https://openalex.org/W602489071","https://openalex.org/W1771679278","https://openalex.org/W2013284377","https://openalex.org/W2300209052","https://openalex.org/W2510905543","https://openalex.org/W2523042949","https://openalex.org/W2533314863","https://openalex.org/W2546356639","https://openalex.org/W2583187079","https://openalex.org/W2620667968","https://openalex.org/W2620826411","https://openalex.org/W2748504058","https://openalex.org/W3101892452"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2384156839","https://openalex.org/W4321602641","https://openalex.org/W2394251275","https://openalex.org/W915072206","https://openalex.org/W4241392912","https://openalex.org/W2489497330","https://openalex.org/W2596801716","https://openalex.org/W4387391601","https://openalex.org/W2141614742"],"abstract_inverted_index":{"RNA":[0,10],"sequences":[1],"start":[2],"folding":[3,71],"immediately":[4],"as":[5],"they":[6],"are":[7],"synthesized":[8],"by":[9,98],"polymerase":[11],"(cotranscriptional":[12],"folding).":[13],"The":[14],"oritatami":[15,46,57,100],"system":[16,58,101],"(OS)":[17],"is":[18,72,88],"a":[19,36,60,79],"novel":[20],"mathematical":[21],"model":[22],"to":[23,67],"study":[24],"computational":[25],"aspects":[26],"of":[27,52,55,64,70,74,82,91],"cotranscriptional":[28],"folding.":[29],"In":[30],"this":[31],"paper,":[32],"we":[33],"first":[34],"provide":[35],"survey":[37],"throughout":[38],"existing":[39],"research":[40,50],"t":[41],"opics":[42],"and":[43,48,84],"results":[44],"on":[45],"systems":[47],"offer":[49],"directions":[51],"significance.":[53],"Simulation":[54],"an":[56,89],"in":[59],"different":[61],"ratio":[62],"(delay)":[63],"transcription":[65],"speed":[66,69],"the":[68],"one":[73],"them.":[75],"We":[76],"will":[77],"introduce":[78],"simple":[80],"notion":[81],"simulation,":[83],"prove":[85],"that":[86,94],"there":[87],"OS":[90],"delay":[92],"\u03b4":[93],"cannot":[95],"be":[96],"simulated":[97],"any":[99],"at":[102],"larger":[103],"delay.":[104]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
