Pub Date : 2022-01-31DOI: 10.1007/978-3-031-15034-0_10
Antonio Jim'enez-Pastor, Joshua Paul Jacob, G. Pogudin
{"title":"Exact linear reduction for rational dynamical systems","authors":"Antonio Jim'enez-Pastor, Joshua Paul Jacob, G. Pogudin","doi":"10.1007/978-3-031-15034-0_10","DOIUrl":"https://doi.org/10.1007/978-3-031-15034-0_10","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"49 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2022-01-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126590269","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 : 2021-07-05DOI: 10.1007/978-3-030-85633-5_4
Ansuman Biswas, Ashutosh Gupta, Meghana Missula, M. Thattai
{"title":"Automated inference of production rules for glycans","authors":"Ansuman Biswas, Ashutosh Gupta, Meghana Missula, M. Thattai","doi":"10.1007/978-3-030-85633-5_4","DOIUrl":"https://doi.org/10.1007/978-3-030-85633-5_4","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-07-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"131315279","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 : 2021-06-30DOI: 10.1007/978-3-030-85633-5_5
Mathieu Hemery, Franccois Fages, S. Soliman
{"title":"Compiling Elementary Mathematical Functions into Finite Chemical Reaction Networks via a Polynomialization Algorithm for ODEs","authors":"Mathieu Hemery, Franccois Fages, S. Soliman","doi":"10.1007/978-3-030-85633-5_5","DOIUrl":"https://doi.org/10.1007/978-3-030-85633-5_5","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"15 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-06-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126468204","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 : 2021-06-29DOI: 10.1007/978-3-030-85633-5_17
Ilia Ilmer, A. Ovchinnikov, G. Pogudin
{"title":"Web-based Structural Identifiability Analyzer","authors":"Ilia Ilmer, A. Ovchinnikov, G. Pogudin","doi":"10.1007/978-3-030-85633-5_17","DOIUrl":"https://doi.org/10.1007/978-3-030-85633-5_17","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"54 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-06-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"121451293","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 : 2021-05-18DOI: 10.1007/978-3-030-85633-5_8
Mathilde Sautreuil, Sarah Lemler, P. Cournède
{"title":"Neural Networks to Predict Survival from RNA-seq Data in Oncology","authors":"Mathilde Sautreuil, Sarah Lemler, P. Cournède","doi":"10.1007/978-3-030-85633-5_8","DOIUrl":"https://doi.org/10.1007/978-3-030-85633-5_8","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"129 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-05-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122901247","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 : 2021-05-10DOI: 10.1007/978-3-030-85633-5_16
David Doty, Eric E. Severson
{"title":"ppsim: A software package for efficiently simulating and visualizing population protocols","authors":"David Doty, Eric E. Severson","doi":"10.1007/978-3-030-85633-5_16","DOIUrl":"https://doi.org/10.1007/978-3-030-85633-5_16","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"40 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-05-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"127547222","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 : 2021-04-29DOI: 10.1007/978-3-030-85633-5_6
G. Pogudin, Xingjian Zhang
{"title":"Interpretable exact linear reductions via positivity","authors":"G. Pogudin, Xingjian Zhang","doi":"10.1007/978-3-030-85633-5_6","DOIUrl":"https://doi.org/10.1007/978-3-030-85633-5_6","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"519 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-04-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"123128868","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 : 2021-03-10DOI: 10.1007/978-3-030-31304-3_2
Jérémie Pardo, Sergiu Ivanov, F. Delaplace
{"title":"Sequential Reprogramming of Biological Network Fate","authors":"Jérémie Pardo, Sergiu Ivanov, F. Delaplace","doi":"10.1007/978-3-030-31304-3_2","DOIUrl":"https://doi.org/10.1007/978-3-030-31304-3_2","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"2 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"121754985","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 : 2020-09-29DOI: 10.1007/978-3-030-60327-4_3
Pavol Bokes, J. Klein, Tatjana Petrov
{"title":"Accelerating Reactions at the DNA Can Slow Down Transient Gene Expression","authors":"Pavol Bokes, J. Klein, Tatjana Petrov","doi":"10.1007/978-3-030-60327-4_3","DOIUrl":"https://doi.org/10.1007/978-3-030-60327-4_3","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"14 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2020-09-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"115472055","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 : 2020-09-23DOI: 10.1007/978-3-030-60327-4_15
Eva Smijáková, Samuel Pastva, David Šafránek, L. Brim
{"title":"Parallel Parameter Synthesis for Multi-affine Hybrid Systems from Hybrid CTL Specifications","authors":"Eva Smijáková, Samuel Pastva, David Šafránek, L. Brim","doi":"10.1007/978-3-030-60327-4_15","DOIUrl":"https://doi.org/10.1007/978-3-030-60327-4_15","url":null,"abstract":"","PeriodicalId":433620,"journal":{"name":"Computational Methods in Systems Biology","volume":"38 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2020-09-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"116158190","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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