Pub Date : 2018-09-12DOI: 10.1007/978-3-319-99429-1_3
Timothy Self, D. Gilbert, M. Heiner
{"title":"Derivation of a Biomass Proxy for Dynamic Analysis of Whole Genome Metabolic Models","authors":"Timothy Self, D. Gilbert, M. Heiner","doi":"10.1007/978-3-319-99429-1_3","DOIUrl":"https://doi.org/10.1007/978-3-319-99429-1_3","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"26 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122624945","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2018-09-12DOI: 10.1007/978-3-319-99429-1_14
A. Vertes, Albert-Baskar Arul, P. Avar, Andrew R. Korte, Hang Li, P. Nemes, Lida Parvin, Sylwia Stopka, S. Hwang, Ziad J. Sahab, Linwen Zhang, Deborah I. Bunin, M. Knapp, Andy Poggio, Mark-Oliver Stehr, C. Talcott, Brian M. Davis, Sean R. Dinn, Christine A. Morton, Christopher J. Sevinsky, M. Zavodszky
{"title":"Inferring Mechanism of Action of an Unknown Compound from Time Series Omics Data","authors":"A. Vertes, Albert-Baskar Arul, P. Avar, Andrew R. Korte, Hang Li, P. Nemes, Lida Parvin, Sylwia Stopka, S. Hwang, Ziad J. Sahab, Linwen Zhang, Deborah I. Bunin, M. Knapp, Andy Poggio, Mark-Oliver Stehr, C. Talcott, Brian M. Davis, Sean R. Dinn, Christine A. Morton, Christopher J. Sevinsky, M. Zavodszky","doi":"10.1007/978-3-319-99429-1_14","DOIUrl":"https://doi.org/10.1007/978-3-319-99429-1_14","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"73 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124680151","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2018-09-12DOI: 10.1007/978-3-319-99429-1_17
Pierre Boutillier, Ferdinanda Camporesi, Jean Coquet, Jérôme Feret, Kim Quyên Lý, N. Théret, Pierre Vignet
{"title":"KaSa: A Static Analyzer for Kappa","authors":"Pierre Boutillier, Ferdinanda Camporesi, Jean Coquet, Jérôme Feret, Kim Quyên Lý, N. Théret, Pierre Vignet","doi":"10.1007/978-3-319-99429-1_17","DOIUrl":"https://doi.org/10.1007/978-3-319-99429-1_17","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"118 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129715833","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2018-09-12DOI: 10.1007/978-3-319-99429-1_19
Justin Feigelman, Daniel Weindl, Fabian J Theis, C. Marr, J. Hasenauer
{"title":"LNA++: Linear Noise Approximation with First and Second Order Sensitivities","authors":"Justin Feigelman, Daniel Weindl, Fabian J Theis, C. Marr, J. Hasenauer","doi":"10.1007/978-3-319-99429-1_19","DOIUrl":"https://doi.org/10.1007/978-3-319-99429-1_19","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"13 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126176801","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2018-09-12DOI: 10.1007/978-3-319-99429-1_2
L. Bortolussi, L. Palmieri
{"title":"Deep Abstractions of Chemical Reaction Networks","authors":"L. Bortolussi, L. Palmieri","doi":"10.1007/978-3-319-99429-1_2","DOIUrl":"https://doi.org/10.1007/978-3-319-99429-1_2","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"136 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"133870212","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2018-09-12DOI: 10.1007/978-3-319-99429-1_1
Samuel M. D. Oliveira, Mohamed N. M. Bahrudeen, S. Startceva, Vinodh Kandavalli, A. Ribeiro
{"title":"Modeling and Engineering Promoters with Pre-defined RNA Production Dynamics in Escherichia Coli","authors":"Samuel M. D. Oliveira, Mohamed N. M. Bahrudeen, S. Startceva, Vinodh Kandavalli, A. Ribeiro","doi":"10.1007/978-3-319-99429-1_1","DOIUrl":"https://doi.org/10.1007/978-3-319-99429-1_1","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"17 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2018-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"132601445","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2017-09-27DOI: 10.1007/978-3-319-67471-1_20
Loïc Paulevé
{"title":"Pint: A Static Analyzer for Transient Dynamics of Qualitative Networks with IPython Interface","authors":"Loïc Paulevé","doi":"10.1007/978-3-319-67471-1_20","DOIUrl":"https://doi.org/10.1007/978-3-319-67471-1_20","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"84 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2017-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"117102186","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2017-09-27DOI: 10.1007/978-3-319-67471-1_15
C. Talcott, M. Knapp
{"title":"Explaining Response to Drugs Using Pathway Logic","authors":"C. Talcott, M. Knapp","doi":"10.1007/978-3-319-67471-1_15","DOIUrl":"https://doi.org/10.1007/978-3-319-67471-1_15","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"646 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2017-09-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"121989555","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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