{"title":"Parameter Estimation for Reaction Rate Equation Constrained Mixture Models","authors":"Carolin Loos, A. Fiedler, J. Hasenauer","doi":"10.1007/978-3-319-45177-0_12","DOIUrl":"https://doi.org/10.1007/978-3-319-45177-0_12","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129338714","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}
{"title":"Formal Quantitative Analysis of Reaction Networks Using Chemical Organisation Theory","authors":"C. Mu, P. Dittrich, D. Parker, J. Rowe","doi":"10.1007/978-3-319-45177-0_15","DOIUrl":"https://doi.org/10.1007/978-3-319-45177-0_15","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"354 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"115930476","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}
Matej Troják, David Šafránek, Jakub Hrabec, J. Šalagovič, Františka Romanovská, J. Červený
{"title":"E-Cyanobacterium.org: A Web-Based Platform for Systems Biology of Cyanobacteria","authors":"Matej Troják, David Šafránek, Jakub Hrabec, J. Šalagovič, Františka Romanovská, J. Červený","doi":"10.1007/978-3-319-45177-0_20","DOIUrl":"https://doi.org/10.1007/978-3-319-45177-0_20","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"9 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126350239","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}
M. Demko, Nikola Benes, L. Brim, Samuel Pastva, David Šafránek
{"title":"High-Performance Symbolic Parameter Synthesis of Biological Models: A Case Study","authors":"M. Demko, Nikola Benes, L. Brim, Samuel Pastva, David Šafránek","doi":"10.1007/978-3-319-45177-0_6","DOIUrl":"https://doi.org/10.1007/978-3-319-45177-0_6","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"70 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"116775573","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}
E. Czeizler, C. Gratie, Wu Kai Chiu, Krishna Kanhaiya, I. Petre
{"title":"Target Controllability of Linear Networks","authors":"E. Czeizler, C. Gratie, Wu Kai Chiu, Krishna Kanhaiya, I. Petre","doi":"10.1007/978-3-319-45177-0_5","DOIUrl":"https://doi.org/10.1007/978-3-319-45177-0_5","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"154 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"116227012","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}
{"title":"Local Traces: An Over-Approximation of the Behaviour of the Proteins in Rule-Based Models","authors":"Jérôme Feret, Kim Quyên Lý","doi":"10.1007/978-3-319-45177-0_8","DOIUrl":"https://doi.org/10.1007/978-3-319-45177-0_8","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"38 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122342395","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}
{"title":"Autonomous and Adaptive Control of Populations of Bacteria Through Environment Regulation","authors":"Chieh Lo, R. Marculescu","doi":"10.1007/978-3-319-45177-0_11","DOIUrl":"https://doi.org/10.1007/978-3-319-45177-0_11","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"36 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"133578715","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}
Guillaume Madelaine, Elisa Tonello, Cédric Lhoussaine, Joachim Niehren
{"title":"Normalizing Chemical Reaction Networks by Confluent Structural Simplification","authors":"Guillaume Madelaine, Elisa Tonello, Cédric Lhoussaine, Joachim Niehren","doi":"10.1007/978-3-319-45177-0_13","DOIUrl":"https://doi.org/10.1007/978-3-319-45177-0_13","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"60 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"130235998","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}
{"title":"(Mathematical) Logic for Systems Biology (Invited Paper)","authors":"J. Despeyroux","doi":"10.1007/978-3-319-45177-0_1","DOIUrl":"https://doi.org/10.1007/978-3-319-45177-0_1","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"11 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"120904300","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}
{"title":"ASSA-PBN 2.0: A Software Tool for Probabilistic Boolean Networks","authors":"Andrzej Mizera, Jun Pang, Qixia Yuan","doi":"10.1007/978-3-319-45177-0_19","DOIUrl":"https://doi.org/10.1007/978-3-319-45177-0_19","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"67 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2016-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124217774","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}