{"id":"https://openalex.org/W2151437418","doi":"https://doi.org/10.1145/2484838.2484872","title":"Adaptive exploration for large-scale protein analysis in the molecular dynamics database","display_name":"Adaptive exploration for large-scale protein analysis in the molecular dynamics database","publication_year":2013,"publication_date":"2013-07-29","ids":{"openalex":"https://openalex.org/W2151437418","doi":"https://doi.org/10.1145/2484838.2484872","mag":"2151437418"},"language":"en","primary_location":{"id":"doi:10.1145/2484838.2484872","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2484838.2484872","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 25th International Conference on Scientific and Statistical Database Management","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/A5071030042","display_name":"Sarana Nutanong","orcid":"https://orcid.org/0000-0003-1068-850X"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Sarana Nutanong","raw_affiliation_strings":["The Johns Hopkins University"],"affiliations":[{"raw_affiliation_string":"The Johns Hopkins University","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091484420","display_name":"Nick Carey","orcid":null},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nick Carey","raw_affiliation_strings":["The Johns Hopkins University"],"affiliations":[{"raw_affiliation_string":"The Johns Hopkins University","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078056606","display_name":"Yanif Ahmad","orcid":"https://orcid.org/0000-0002-6303-2646"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yanif Ahmad","raw_affiliation_strings":["The Johns Hopkins University"],"affiliations":[{"raw_affiliation_string":"The Johns Hopkins University","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019891335","display_name":"Alexander S. Szalay","orcid":"https://orcid.org/0000-0002-4108-3282"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alex S. Szalay","raw_affiliation_strings":["The Johns Hopkins University"],"affiliations":[{"raw_affiliation_string":"The Johns Hopkins University","institution_ids":["https://openalex.org/I145311948"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5090381811","display_name":"Thomas B. Woolf","orcid":"https://orcid.org/0000-0003-4523-2772"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Thomas B. Woolf","raw_affiliation_strings":["The Johns Hopkins School of Medicine"],"affiliations":[{"raw_affiliation_string":"The Johns Hopkins School of Medicine","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5071030042"],"corresponding_institution_ids":["https://openalex.org/I145311948"],"apc_list":null,"apc_paid":null,"fwci":1.4498,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.8517785,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"4"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10317","display_name":"Advanced Database Systems and Queries","score":0.9987999796867371,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10317","display_name":"Advanced Database Systems and Queries","score":0.9987999796867371,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"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/T11106","display_name":"Data Management and Algorithms","score":0.9923999905586243,"subfield":{"id":"https://openalex.org/subfields/1711","display_name":"Signal Processing"},"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/T10538","display_name":"Data Mining Algorithms and Applications","score":0.9882000088691711,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7975159883499146},{"id":"https://openalex.org/keywords/bottleneck","display_name":"Bottleneck","score":0.7191698551177979},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.6650477647781372},{"id":"https://openalex.org/keywords/big-data","display_name":"Big data","score":0.5415104031562805},{"id":"https://openalex.org/keywords/reinforcement-learning","display_name":"Reinforcement learning","score":0.5208950042724609},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.4935704469680786},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3912428617477417},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3732837438583374},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.27629774808883667},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.2026161551475525}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7975159883499146},{"id":"https://openalex.org/C2780513914","wikidata":"https://www.wikidata.org/wiki/Q18210350","display_name":"Bottleneck","level":2,"score":0.7191698551177979},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.6650477647781372},{"id":"https://openalex.org/C75684735","wikidata":"https://www.wikidata.org/wiki/Q858810","display_name":"Big data","level":2,"score":0.5415104031562805},{"id":"https://openalex.org/C97541855","wikidata":"https://www.wikidata.org/wiki/Q830687","display_name":"Reinforcement learning","level":2,"score":0.5208950042724609},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.4935704469680786},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3912428617477417},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3732837438583374},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.27629774808883667},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.2026161551475525},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2484838.2484872","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2484838.2484872","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 25th International Conference on Scientific and Statistical Database Management","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.46000000834465027,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":10,"referenced_works":["https://openalex.org/W1962705364","https://openalex.org/W1995921382","https://openalex.org/W2028263411","https://openalex.org/W2029683657","https://openalex.org/W2072764742","https://openalex.org/W2074489032","https://openalex.org/W2090850279","https://openalex.org/W2124745044","https://openalex.org/W2131165411","https://openalex.org/W2170711116"],"related_works":["https://openalex.org/W17155033","https://openalex.org/W2595172197","https://openalex.org/W3207760230","https://openalex.org/W1496222301","https://openalex.org/W4312814274","https://openalex.org/W1590307681","https://openalex.org/W2536018345","https://openalex.org/W4285370786","https://openalex.org/W2011430815","https://openalex.org/W4321606653"],"abstract_inverted_index":{"Molecular":[0,63],"dynamics":[1],"(MD)":[2],"simulations":[3,12,101,121],"generate":[4],"detailed":[5],"time-series":[6],"data":[7,36,141],"of":[8,16,29,46,75,100,119,126,148],"all-atom":[9],"motions.":[10],"These":[11],"are":[13,23],"leading":[14],"users":[15],"the":[17,62,73,97,116,127],"world's":[18],"most":[19],"powerful":[20],"supercomputers,":[21],"and":[22,38,49,142,145,159,162,171],"standard-bearers":[24],"for":[25,78,105],"a":[26,93],"wide":[27],"range":[28],"high-performance":[30],"computing":[31],"(HPC)":[32],"methods.":[33,150],"However,":[34],"MD":[35,82,90,120],"exploration":[37,88,128,169],"analysis":[39],"is":[40],"in":[41,44,89],"its":[42,51,146],"infancy":[43],"terms":[45],"scalability,":[47],"ease-of-use,":[48],"ultimately":[50],"ability":[52],"to":[53,71,108,122,166,175],"answer":[54],"'grand":[55],"challenge'":[56],"science":[57,112,160,180],"questions.":[58,113,181],"This":[59],"demonstration":[60],"introduces":[61],"Dynamics":[64],"Database":[65],"(MDDB)":[66],"project":[67],"at":[68],"Johns":[69],"Hopkins,":[70],"study":[72],"co-design":[74],"database":[76],"methods":[77],"deep":[79],"on-the-fly":[80],"exploratory":[81],"analyses":[83],"with":[84,130,155],"HPC":[85],"simulations.":[86],"Data":[87],"suffers":[91],"from":[92],"\"human":[94],"bottleneck\",":[95],"where":[96,176],"laborious":[98],"administration":[99],"leaves":[102],"little":[103],"room":[104],"domain":[106],"experts":[107],"focus":[109],"on":[110],"tackling":[111],"MDDB":[114],"exploits":[115],"data-rich":[117],"nature":[118],"provide":[123],"adaptive":[124],"control":[125],"process":[129],"machine":[131],"learning":[132,136],"techniques,":[133],"specifically":[134],"reinforcement":[135],"(RL).":[137],"We":[138],"present":[139],"MDDB's":[140,164],"queries,":[143],"architecture,":[144],"use":[147],"RL":[149],"Our":[151],"audience":[152],"will":[153],"co-operate":[154],"our":[156],"steering":[157],"algorithm":[158],"partners,":[161],"witness":[163],"abilities":[165],"significantly":[167],"reduce":[168],"times":[170],"direct":[172],"computation":[173],"resources":[174],"they":[177],"best":[178],"address":[179]},"counts_by_year":[{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":2},{"year":2012,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
