{"id":"https://openalex.org/W2009064747","doi":"https://doi.org/10.1007/s11265-007-0072-7","title":"Mesoscopic-level Simulation of Dynamics and Interactions of Biological Molecules Using Monte Carlo Simulation","display_name":"Mesoscopic-level Simulation of Dynamics and Interactions of Biological Molecules Using Monte Carlo Simulation","publication_year":2007,"publication_date":"2007-08-02","ids":{"openalex":"https://openalex.org/W2009064747","doi":"https://doi.org/10.1007/s11265-007-0072-7","mag":"2009064747"},"language":"en","primary_location":{"id":"doi:10.1007/s11265-007-0072-7","is_oa":false,"landing_page_url":"https://doi.org/10.1007/s11265-007-0072-7","pdf_url":null,"source":{"id":"https://openalex.org/S4210233059","display_name":"The Journal of VLSI Signal Processing Systems for Signal Image and Video Technology","issn_l":"0922-5773","issn":["0922-5773","1573-109X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The Journal of VLSI Signal Processing Systems for Signal, Image, and Video Technology","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/A5060442383","display_name":"Yoshiki Yamaguchi","orcid":"https://orcid.org/0000-0001-9744-8271"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]},{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Yoshiki Yamaguchi","raw_affiliation_strings":["Graduate Schoo of Systems and Information Engineering, University of Tsukuba, 1-1-1 Tenoudai, Tsukuba, Ibaraki, 305-8573, Japan","RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Graduate Schoo of Systems and Information Engineering, University of Tsukuba, 1-1-1 Tenoudai, Tsukuba, Ibaraki, 305-8573, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":"RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan","institution_ids":["https://openalex.org/I4210150921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102968876","display_name":"Tsutomu Maruyama","orcid":"https://orcid.org/0000-0003-3857-2357"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]},{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Tsutomu Maruyama","raw_affiliation_strings":["Graduate Schoo of Systems and Information Engineering, University of Tsukuba, 1-1-1 Tenoudai, Tsukuba, Ibaraki, 305-8573, Japan","RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Graduate Schoo of Systems and Information Engineering, University of Tsukuba, 1-1-1 Tenoudai, Tsukuba, Ibaraki, 305-8573, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":"RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan","institution_ids":["https://openalex.org/I4210150921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052810730","display_name":"Ryuzo Azuma","orcid":"https://orcid.org/0000-0001-9637-8718"},"institutions":[{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Ryuzo Azuma","raw_affiliation_strings":["RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan","institution_ids":["https://openalex.org/I4210150921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103470416","display_name":"Moritoshi Yasunaga","orcid":null},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Moritoshi Yasunaga","raw_affiliation_strings":["Graduate Schoo of Systems and Information Engineering, University of Tsukuba, 1-1-1 Tenoudai, Tsukuba, Ibaraki, 305-8573, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Graduate Schoo of Systems and Information Engineering, University of Tsukuba, 1-1-1 Tenoudai, Tsukuba, Ibaraki, 305-8573, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5080907178","display_name":"Akihiko Konagaya","orcid":"https://orcid.org/0000-0001-6846-7449"},"institutions":[{"id":"https://openalex.org/I114531698","display_name":"Tokyo Institute of Technology","ror":"https://ror.org/0112mx960","country_code":"JP","type":"education","lineage":["https://openalex.org/I114531698"]},{"id":"https://openalex.org/I4210150921","display_name":"RIKEN Center for Integrative Medical Sciences","ror":"https://ror.org/04mb6s476","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210150921"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Akihiko Konagaya","raw_affiliation_strings":["Department of Mathematics and Computing Sciences, Tokyo Institute of Technology, 2-21-1 Ookayama, Meguro, Tokyo, 152-8552, Japan","RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics and Computing Sciences, Tokyo Institute of Technology, 2-21-1 Ookayama, Meguro, Tokyo, 152-8552, Japan","institution_ids":["https://openalex.org/I114531698"]},{"raw_affiliation_string":"RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan","institution_ids":["https://openalex.org/I4210150921"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5060442383"],"corresponding_institution_ids":["https://openalex.org/I146399215","https://openalex.org/I4210150921"],"apc_list":null,"apc_paid":null,"fwci":0.1258,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.50164174,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"48","issue":"3","first_page":"287","last_page":"299"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9984999895095825,"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":0.9984999895095825,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9955000281333923,"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/T13539","display_name":"thermodynamics and calorimetric analyses","score":0.9832000136375427,"subfield":{"id":"https://openalex.org/subfields/1606","display_name":"Physical and Theoretical Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/mesoscopic-physics","display_name":"Mesoscopic physics","score":0.8393692970275879},{"id":"https://openalex.org/keywords/pentium","display_name":"Pentium","score":0.7807780504226685},{"id":"https://openalex.org/keywords/monte-carlo-method","display_name":"Monte Carlo method","score":0.7680273056030273},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5589799880981445},{"id":"https://openalex.org/keywords/molecular-dynamics","display_name":"Molecular dynamics","score":0.4955967664718628},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.44966262578964233},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.43775707483291626},{"id":"https://openalex.org/keywords/statistical-physics","display_name":"Statistical physics","score":0.41965073347091675},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.3791311979293823},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3308369815349579},{"id":"https://openalex.org/keywords/simulation","display_name":"Simulation","score":0.3250083923339844},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2251451313495636},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.22447073459625244},{"id":"https://openalex.org/keywords/computational-chemistry","display_name":"Computational chemistry","score":0.1979808807373047},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.0861196219921112}],"concepts":[{"id":"https://openalex.org/C177731217","wikidata":"https://www.wikidata.org/wiki/Q2622244","display_name":"Mesoscopic physics","level":2,"score":0.8393692970275879},{"id":"https://openalex.org/C46268123","wikidata":"https://www.wikidata.org/wiki/Q214314","display_name":"Pentium","level":2,"score":0.7807780504226685},{"id":"https://openalex.org/C19499675","wikidata":"https://www.wikidata.org/wiki/Q232207","display_name":"Monte Carlo method","level":2,"score":0.7680273056030273},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5589799880981445},{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.4955967664718628},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.44966262578964233},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.43775707483291626},{"id":"https://openalex.org/C121864883","wikidata":"https://www.wikidata.org/wiki/Q677916","display_name":"Statistical physics","level":1,"score":0.41965073347091675},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.3791311979293823},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3308369815349579},{"id":"https://openalex.org/C44154836","wikidata":"https://www.wikidata.org/wiki/Q45045","display_name":"Simulation","level":1,"score":0.3250083923339844},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2251451313495636},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.22447073459625244},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.1979808807373047},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0861196219921112},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/s11265-007-0072-7","is_oa":false,"landing_page_url":"https://doi.org/10.1007/s11265-007-0072-7","pdf_url":null,"source":{"id":"https://openalex.org/S4210233059","display_name":"The Journal of VLSI Signal Processing Systems for Signal Image and Video Technology","issn_l":"0922-5773","issn":["0922-5773","1573-109X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The Journal of VLSI Signal Processing Systems for Signal, Image, and Video Technology","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":25,"referenced_works":["https://openalex.org/W1525256105","https://openalex.org/W1528711868","https://openalex.org/W1576977069","https://openalex.org/W1590146790","https://openalex.org/W1601296974","https://openalex.org/W1688739247","https://openalex.org/W1955660753","https://openalex.org/W1963855808","https://openalex.org/W1978281521","https://openalex.org/W1982258483","https://openalex.org/W2005108403","https://openalex.org/W2015884353","https://openalex.org/W2031794121","https://openalex.org/W2032245675","https://openalex.org/W2040890820","https://openalex.org/W2049222491","https://openalex.org/W2070658593","https://openalex.org/W2096033084","https://openalex.org/W2109061531","https://openalex.org/W2111420033","https://openalex.org/W2112764635","https://openalex.org/W2125820659","https://openalex.org/W2159482845","https://openalex.org/W2176097705","https://openalex.org/W3216035567"],"related_works":["https://openalex.org/W1597195064","https://openalex.org/W5012203","https://openalex.org/W2790535609","https://openalex.org/W1995574656","https://openalex.org/W97316223","https://openalex.org/W4240653033","https://openalex.org/W2534474591","https://openalex.org/W2366448304","https://openalex.org/W2105095141","https://openalex.org/W2088034942"],"abstract_inverted_index":null,"counts_by_year":[],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
