{"id":"https://openalex.org/W3035995126","doi":"https://doi.org/10.23919/acc45564.2020.9147230","title":"Prediction of fitness in bacteria with causal jump dynamic mode decomposition","display_name":"Prediction of fitness in bacteria with causal jump dynamic mode decomposition","publication_year":2020,"publication_date":"2020-07-01","ids":{"openalex":"https://openalex.org/W3035995126","doi":"https://doi.org/10.23919/acc45564.2020.9147230","mag":"3035995126"},"language":"en","primary_location":{"id":"doi:10.23919/acc45564.2020.9147230","is_oa":false,"landing_page_url":"https://doi.org/10.23919/acc45564.2020.9147230","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2020 American Control Conference (ACC)","raw_type":"proceedings-article"},"type":"preprint","indexed_in":["arxiv","crossref","datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://arxiv.org/pdf/2006.12726","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5036831250","display_name":"Shara Balakrishnan","orcid":null},"institutions":[{"id":"https://openalex.org/I154570441","display_name":"University of California, Santa Barbara","ror":"https://ror.org/02t274463","country_code":"US","type":"education","lineage":["https://openalex.org/I154570441"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Shara Balakrishnan","raw_affiliation_strings":["Department of Electrical and Computer Engineering, University of California, Santa Barbara","University of California, Santa Barbara, Santa Barbara, United States"],"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, University of California, Santa Barbara","institution_ids":["https://openalex.org/I154570441"]},{"raw_affiliation_string":"University of California, Santa Barbara, Santa Barbara, United States","institution_ids":["https://openalex.org/I154570441"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053016610","display_name":"Aqib Hasnain","orcid":"https://orcid.org/0000-0002-2057-7953"},"institutions":[{"id":"https://openalex.org/I154570441","display_name":"University of California, Santa Barbara","ror":"https://ror.org/02t274463","country_code":"US","type":"education","lineage":["https://openalex.org/I154570441"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Aqib Hasnain","raw_affiliation_strings":["Department of Mechanical Engineering, University of California, Santa Barbara","University of California, Santa Barbara, Santa Barbara, United States"],"affiliations":[{"raw_affiliation_string":"Department of Mechanical Engineering, University of California, Santa Barbara","institution_ids":["https://openalex.org/I154570441"]},{"raw_affiliation_string":"University of California, Santa Barbara, Santa Barbara, United States","institution_ids":["https://openalex.org/I154570441"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090227921","display_name":"Nibodh Boddupalli","orcid":"https://orcid.org/0000-0002-6306-0946"},"institutions":[{"id":"https://openalex.org/I154570441","display_name":"University of California, Santa Barbara","ror":"https://ror.org/02t274463","country_code":"US","type":"education","lineage":["https://openalex.org/I154570441"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nibodh Boddupalli","raw_affiliation_strings":["Department of Mechanical Engineering, University of California, Santa Barbara","University of California, Santa Barbara, Santa Barbara, United States"],"affiliations":[{"raw_affiliation_string":"Department of Mechanical Engineering, University of California, Santa Barbara","institution_ids":["https://openalex.org/I154570441"]},{"raw_affiliation_string":"University of California, Santa Barbara, Santa Barbara, United States","institution_ids":["https://openalex.org/I154570441"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047479179","display_name":"Dennis M. Joshy","orcid":"https://orcid.org/0000-0003-2966-257X"},"institutions":[{"id":"https://openalex.org/I154570441","display_name":"University of California, Santa Barbara","ror":"https://ror.org/02t274463","country_code":"US","type":"education","lineage":["https://openalex.org/I154570441"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dennis M. Joshy","raw_affiliation_strings":["Department of Mechanical Engineering, University of California, Santa Barbara"],"affiliations":[{"raw_affiliation_string":"Department of Mechanical Engineering, University of California, Santa Barbara","institution_ids":["https://openalex.org/I154570441"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013704427","display_name":"Robert G. Egbert","orcid":"https://orcid.org/0000-0002-9470-7124"},"institutions":[{"id":"https://openalex.org/I142606810","display_name":"Pacific Northwest National Laboratory","ror":"https://ror.org/05h992307","country_code":"US","type":"facility","lineage":["https://openalex.org/I1325736334","https://openalex.org/I1330989302","https://openalex.org/I142606810","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Robert G. Egbert","raw_affiliation_strings":["Environmental and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA","Pacific Northwest National Laboratory, Richland, United States"],"affiliations":[{"raw_affiliation_string":"Environmental and Biological Sciences Directorate, Pacific Northwest National Laboratory, Richland, WA","institution_ids":["https://openalex.org/I142606810"]},{"raw_affiliation_string":"Pacific Northwest National Laboratory, Richland, United States","institution_ids":["https://openalex.org/I142606810"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091530669","display_name":"Enoch Yeung","orcid":"https://orcid.org/0000-0001-7630-7429"},"institutions":[{"id":"https://openalex.org/I4210140143","display_name":"Dynamic Systems (United States)","ror":"https://ror.org/043vm9914","country_code":"US","type":"company","lineage":["https://openalex.org/I4210140143"]},{"id":"https://openalex.org/I154570441","display_name":"University of California, Santa Barbara","ror":"https://ror.org/02t274463","country_code":"US","type":"education","lineage":["https://openalex.org/I154570441"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Enoch Yeung","raw_affiliation_strings":["Mechanical Engineering, Center for Control, Dynamical Systems, and Computation, and Biomolecular Science and Engineering, University of California, Santa Barbara","University of California, Santa Barbara, Santa Barbara, United States"],"affiliations":[{"raw_affiliation_string":"Mechanical Engineering, Center for Control, Dynamical Systems, and Computation, and Biomolecular Science and Engineering, University of California, Santa Barbara","institution_ids":["https://openalex.org/I4210140143","https://openalex.org/I154570441"]},{"raw_affiliation_string":"University of California, Santa Barbara, Santa Barbara, United States","institution_ids":["https://openalex.org/I154570441"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5036831250"],"corresponding_institution_ids":["https://openalex.org/I154570441"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.07514825,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"25","issue":null,"first_page":"3749","last_page":"3756"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11206","display_name":"Model Reduction and Neural Networks","score":0.9980999827384949,"subfield":{"id":"https://openalex.org/subfields/3109","display_name":"Statistical and Nonlinear Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11206","display_name":"Model Reduction and Neural Networks","score":0.9980999827384949,"subfield":{"id":"https://openalex.org/subfields/3109","display_name":"Statistical and Nonlinear Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","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/T12814","display_name":"Gaussian Processes and Bayesian Inference","score":0.9732999801635742,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/autoregressive-model","display_name":"Autoregressive model","score":0.6198904514312744},{"id":"https://openalex.org/keywords/jump","display_name":"Jump","score":0.4885476529598236},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.48699527978897095},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.475475937128067},{"id":"https://openalex.org/keywords/dynamic-mode-decomposition","display_name":"Dynamic mode decomposition","score":0.47420790791511536},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.449256956577301},{"id":"https://openalex.org/keywords/nonlinear-system","display_name":"Nonlinear system","score":0.43247368931770325},{"id":"https://openalex.org/keywords/system-identification","display_name":"System identification","score":0.41509079933166504},{"id":"https://openalex.org/keywords/growth-curve","display_name":"Growth curve (statistics)","score":0.4149777889251709},{"id":"https://openalex.org/keywords/applied-mathematics","display_name":"Applied mathematics","score":0.3998171389102936},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3856383264064789},{"id":"https://openalex.org/keywords/mathematical-optimization","display_name":"Mathematical optimization","score":0.36405593156814575},{"id":"https://openalex.org/keywords/data-modeling","display_name":"Data modeling","score":0.2380250096321106},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.21931463479995728},{"id":"https://openalex.org/keywords/econometrics","display_name":"Econometrics","score":0.18472900986671448}],"concepts":[{"id":"https://openalex.org/C159877910","wikidata":"https://www.wikidata.org/wiki/Q2202883","display_name":"Autoregressive model","level":2,"score":0.6198904514312744},{"id":"https://openalex.org/C2780695682","wikidata":"https://www.wikidata.org/wiki/Q4005959","display_name":"Jump","level":2,"score":0.4885476529598236},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.48699527978897095},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.475475937128067},{"id":"https://openalex.org/C2777032711","wikidata":"https://www.wikidata.org/wiki/Q5318993","display_name":"Dynamic mode decomposition","level":2,"score":0.47420790791511536},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.449256956577301},{"id":"https://openalex.org/C158622935","wikidata":"https://www.wikidata.org/wiki/Q660848","display_name":"Nonlinear system","level":2,"score":0.43247368931770325},{"id":"https://openalex.org/C119247159","wikidata":"https://www.wikidata.org/wiki/Q1366192","display_name":"System identification","level":3,"score":0.41509079933166504},{"id":"https://openalex.org/C2776913854","wikidata":"https://www.wikidata.org/wiki/Q25345887","display_name":"Growth curve (statistics)","level":2,"score":0.4149777889251709},{"id":"https://openalex.org/C28826006","wikidata":"https://www.wikidata.org/wiki/Q33521","display_name":"Applied mathematics","level":1,"score":0.3998171389102936},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3856383264064789},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.36405593156814575},{"id":"https://openalex.org/C67186912","wikidata":"https://www.wikidata.org/wiki/Q367664","display_name":"Data modeling","level":2,"score":0.2380250096321106},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.21931463479995728},{"id":"https://openalex.org/C149782125","wikidata":"https://www.wikidata.org/wiki/Q160039","display_name":"Econometrics","level":1,"score":0.18472900986671448},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"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/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.23919/acc45564.2020.9147230","is_oa":false,"landing_page_url":"https://doi.org/10.23919/acc45564.2020.9147230","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2020 American Control Conference (ACC)","raw_type":"proceedings-article"},{"id":"pmh:oai:arXiv.org:2006.12726","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2006.12726","pdf_url":"https://arxiv.org/pdf/2006.12726","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},{"id":"mag:3035995126","is_oa":true,"landing_page_url":"http://arxiv.org/pdf/2006.12726.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"arXiv (Cornell University)","raw_type":null},{"id":"doi:10.48550/arxiv.2006.12726","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2006.12726","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"pmh:oai:arXiv.org:2006.12726","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2006.12726","pdf_url":"https://arxiv.org/pdf/2006.12726","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3035995126.pdf","grobid_xml":"https://content.openalex.org/works/W3035995126.grobid-xml"},"referenced_works_count":44,"referenced_works":["https://openalex.org/W70836159","https://openalex.org/W1487657646","https://openalex.org/W1547262892","https://openalex.org/W1582621203","https://openalex.org/W1591018827","https://openalex.org/W1723433682","https://openalex.org/W2014356541","https://openalex.org/W2045762345","https://openalex.org/W2067035505","https://openalex.org/W2099653663","https://openalex.org/W2106418531","https://openalex.org/W2144683622","https://openalex.org/W2152146387","https://openalex.org/W2164954534","https://openalex.org/W2238595451","https://openalex.org/W2298762068","https://openalex.org/W2417582922","https://openalex.org/W2494398414","https://openalex.org/W2551318894","https://openalex.org/W2564386551","https://openalex.org/W2605532580","https://openalex.org/W2614283331","https://openalex.org/W2730644873","https://openalex.org/W2743063996","https://openalex.org/W2773571561","https://openalex.org/W2884807761","https://openalex.org/W2904677466","https://openalex.org/W2909116885","https://openalex.org/W2946056067","https://openalex.org/W2963198642","https://openalex.org/W2963535512","https://openalex.org/W2963765797","https://openalex.org/W2963818575","https://openalex.org/W2963882206","https://openalex.org/W2968921037","https://openalex.org/W2972380049","https://openalex.org/W2973004389","https://openalex.org/W3038118776","https://openalex.org/W3099674394","https://openalex.org/W3104078628","https://openalex.org/W3105713006","https://openalex.org/W3105778049","https://openalex.org/W6743945476","https://openalex.org/W6753913730"],"related_works":["https://openalex.org/W3045831675","https://openalex.org/W2278658610","https://openalex.org/W3085009157","https://openalex.org/W2949373292","https://openalex.org/W3207139639","https://openalex.org/W2888660970","https://openalex.org/W2972696093","https://openalex.org/W2140428144","https://openalex.org/W1675271000","https://openalex.org/W1980853785","https://openalex.org/W223442382","https://openalex.org/W3118816958","https://openalex.org/W2809597443","https://openalex.org/W2060424176","https://openalex.org/W135306462","https://openalex.org/W2794805040","https://openalex.org/W2036190133","https://openalex.org/W2780841511","https://openalex.org/W2885007571","https://openalex.org/W3098233919"],"abstract_inverted_index":{"In":[0],"this":[1,50,140],"paper,":[2],"we":[3,118,150,157],"consider":[4],"the":[5,21,43,76,83,99,131],"problem":[6],"of":[7,20,55,61,98,130,170],"learning":[8],"a":[9,18,27,59,68,96,107,114,120,136,160,168],"predictive":[10],"model":[11,73,80,110,133,141,179],"for":[12,31,72,139],"population":[13],"cell":[14,37],"growth":[15,38,53,161,173,185,194],"dynamics":[16],"as":[17,58,167],"function":[19,60,169],"media":[22],"conditions.":[23,174],"We":[24,40,66,85,102,175],"first":[25],"introduce":[26,42],"generic":[28],"data-driven":[29],"framework":[30],"training":[32,184],"operator-theoretic":[33],"models":[34],"to":[35,81,94,112,182],"predict":[36,192],"rate.":[39],"then":[41],"experimental":[44],"design":[45],"and":[46,63,111,134,191],"data":[47,69,187,196],"generated":[48],"in":[49],"study,":[51],"namely":[52],"curves":[54],"Pseudomonas":[56],"putida":[57],"casein":[62],"glucose":[64],"concentrations.":[65],"use":[67],"driven":[70],"approach":[71],"identification,":[74],"specifically":[75],"nonlinear":[77],"autoregressive":[78],"(NAR)":[79],"represent":[82],"dynamics.":[84],"show":[86,103,176],"theoretically":[87],"that":[88,104,177],"Hankel":[89],"DMD":[90],"can":[91],"be":[92],"used":[93],"obtain":[95,113],"solution":[97],"NAR":[100,109,132],"model.":[101],"it":[105],"identifies":[106],"constrained":[108],"more":[115],"general":[116],"solution,":[117],"define":[119],"causal":[121],"state":[122],"space":[123],"system":[124],"using":[125,142],"1-step,":[126],"2-step,...,":[127],"\u03c4-step":[128],"predictors":[129],"identify":[135],"Koopman":[137],"operator":[138],"extended":[143],"dynamic":[144,153],"mode":[145,154],"decomposition.":[146],"The":[147],"hybrid":[148],"scheme":[149],"call":[151],"causal-jump":[152],"decomposition,":[155],"which":[156],"illustrate":[158],"on":[159],"profile":[162],"or":[163],"fitness":[164],"prediction":[165],"challenge":[166],"different":[171],"input":[172],"our":[178],"is":[180],"able":[181],"recapitulate":[183],"curve":[186,195],"with":[188,197],"96.6%":[189],"accuracy":[190],"test":[193],"91%":[198],"accuracy.":[199]},"counts_by_year":[],"updated_date":"2026-03-10T16:38:18.471706","created_date":"2025-10-10T00:00:00"}