Volume 51; Issue 19

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IFAC-PapersOnLine
Volume 51; Issue 19

IFAC-PapersOnLine

Volume 51; Issue 19

1

One-Stage vs. Two-Stage Bioprocesses: Comparative Computational and Experimental Studies and Consequences for Strain Design

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 248 KB

english, 2018

2

Dynamic Modelling of Mitochondrial Metabolism

Bolaji, Olufemi, Klipp, Edda

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 418 KB

english, 2018

3

Characterization of Blood Volume Space and Mitochondrial Activity in Functional Renal Cells

McCarroll, Matthew J., Clermont, Gilles, Gomez, Hernando, Swigon, David, Parker, Robert S.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 757 KB

english, 2018

4

Single cell analysis of oscillatory Ca2+ signalling in epithelial cells

Kumar, Nilay, Brodsky, Pavel, Zartman, Jeremiah

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 648 KB

english, 2018

5

Physiologically-Based Model of Fluid Absorption and Mucociliary Clearance in Cystic Fibrosis

Shapiro, Monica E., Corcoran, Timothy E., Bertrand, Carol A., Serrano Castillo, Florencio, Parker, Robert S.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 408 KB

english, 2018

6

Revealing the Biological Meaning of Alternative Optimal Solutions of an E. coli Core Model through a System Identification Based Framework

Hilliard, Matthew, He, Q. Peter, Wang, Jin

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 518 KB

english, 2018

7

ATPase binding and consequent disassembly of the type VI secretion system in Vibrio cholerae: a dynamic model

Smith-Roberge, Julien, Stietz, Maria Silvina, Dong, Tao G., Ingalls, Brian

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 409 KB

english, 2018

8

Multistability in a prion replication interconnected cell reaction network

Méndez-González, J.M., Otero-Muras, Irene

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 371 KB

english, 2018

9

Model Uncertainty Analysis for Metabolic Network Inference: A Case Study in Bayesian Model Averaging

Theorell, Axel, Nöh, Katharina

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 361 KB

english, 2018

10

Modeling the Adhesive Behavior of Platelets During Coagulation

Cala, Megan P., McCarthy, Joseph J., Parker, Robert S.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 1.02 MB

english, 2018

11

Examining Dynamic Emergent Properties of the DNA Sensing Pathway

Gregg, Robert W., Sarkar, Saumendra, Shoemaker, Jason E.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 424 KB

english, 2018

12

Using a System Identification based Framework to Elucidate How Scheffersomyces stipitis Shifts Redox in Response to Reduced Oxygen Supply

Hilliard, Matthew, Damiani, Andrew, He, Q. Peter, Wang, Jin

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 509 KB

english, 2018

13

Mapping the calcium signalsome during Drosophila wing development

Brodskiy, Pavel A., Wu, Qinfeng, Kumar, Nilay Kumar, Naidu Velagala, Vijay Kumar, Snyder, Kara L., Huizar, Francisco J., Tautges, Seth J., Snyder, Meaghan, Zartman, Jeremiah J.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 657 KB

english, 2018

14

Efficient simulation of stochastic gene regulatory networks

Pájaro, Manuel, Otero-Muras, Irene, Vázquez, Carlos, Alonso, Antonio A.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 742 KB

english, 2018

15

Modelling the Central Carbon Metabolism of three Cancer Cells using 13C Data

Rainer, Roman, Klipp, Edda

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 315 KB

english, 2018

16

Efficient Biochemical Pathway Prediction Using Simulated Annealing

Xu, Zhiqing, Mahadevan, Radhakrishnan

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 387 KB

english, 2018

17

A multiscale model of influenza A virus replication covering highly different infection conditions in cell cultures

Rüdiger, D., Kupke, S.Y., Reichl, U.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 627 KB

english, 2018

18

Predicting host immune cell dynamics using tissue gene expression

Wang, Muying, Fukuyama, Satoshi, Kawaoka, Yoshihiro, Shoemaker, Jason E.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 432 KB

english, 2018

19

Contents

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 318 KB

english, 2018

20

Mathematical modeling as a tool to improve influenza vaccine production processes

Duvigneau, Stefanie, Dürr, Robert, Laske, Tanja, Bachmann, Mandy, Dostert, Melanie, Reichl, Udo, Kienle, Achim

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 1004 KB

english, 2018

21

NET works after all? Engineering robustness through diversity

Mondeel, Thierry D.G.A., Astrologo, Stefania, Zhang, Yanfei, Westerhoff, Hans V.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 635 KB

english, 2018

22

Multi-objective identification from fluorescence recovery after photobleaching experiments: Understanding morphogenetic regulation of epithelial polarity

Vignoni, A., Bajur, A., Knust, E., Sbalzarini, I.F.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 927 KB

english, 2018

23

Modeling intercellular calcium dynamics in an epithelial organ using Dynamic Mode Decomposition

Torghabeh, Ramezan Paravi, Zartman, Jeremiah J.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 1.15 MB

english, 2018

24

Numerical Modelling of C. elegans L1 Aggregation

Avery, Leon, Ingalls, Brian, Artyukhin, Alexander

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 679 KB

english, 2018

25

Sufficiently Exciting Inputs for Structurally Identifiable Systems Biology Models

Villaverde, Alejandro F., Evans, Neil D., Chappell, Michael J., Banga, Julio R.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 457 KB

english, 2018

26

Dynamical resource allocation models for bioreactor optimization

Jeanne, Guillaume, Goelzer, Anne, Tebbani, Sihem, Dumur, Didier, Fromion, Vincent

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 390 KB

english, 2018

27

Dynamic Transcriptomic Data Analysis by Integrating Data-driven and Model-guided Approaches

Hilliard, Matthew, He, Q. Peter, Wang, Jin

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 812 KB

english, 2018

28

Toward Multi-Input Control: A Dual-Feedback Loop Model of the Mammalian Circadian Clock

Brown, Lindsey S., Doyle, Francis J.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 899 KB

english, 2018

29

A Novel Technique for Model Reduction of Biochemical Reaction Networks

Gasparyan, Manvel, Messem, Arnout Van, Rao, Shodhan

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 358 KB

english, 2018

30

Evaluation of Derivative-Free Optimizers for Parameter Estimation in Systems Biology

Schälte, Yannik, Stapor, Paul, Hasenauer, Jan

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 489 KB

english, 2018

31

A Dynamic Model of Cystic Fibrosis Airway Epithelium Electrophysiology

Castillo, Florencio Serrano, Bertrand, Carol A., Corcoran, Timothy E., Shapiro, Monica E., Parker, Robert S.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 523 KB

english, 2018

32

Death patterns resulting from cell cycle-independent cell death.

Imig, Dirke, Kuritz, Karsten, Pollak, Nadine, Rehm, Markus, Allgöwer, Frank

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 495 KB

english, 2018

33

Model Predictive Control of a Fed-batch Bioreactor Based on Dynamic Metabolic-Genetic Network Models

Jabarivelisdeh, Banafsheh, Findeisen, Rolf, Waldherr, Steffen

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 681 KB

english, 2018

34

Comparator-based gene regulatory network designs for control of expression

Kazemi, J., Ozgoli, S., Ingalls, B.P.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 742 KB

english, 2018

35

Optimal experimental design for characterizing gene expression: sample scheduling

Braniff, N., Reed, M., Ingalls, B.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 498 KB

english, 2018

36

Coupled Model of Blood Volume and Activated Clotting Factor Concentration during Childbirth

Pressly, Michelle A., Neal, Matthew D., Waters, Jonathan H., Clermont, Gilles, Parker, Robert S.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 612 KB

english, 2018

37

A Model-Based Investigation of Cytokine Storm for T-Cell Therapy

Hopkins, Brooks, Tucker, Matthew, Pan, Yiming, Fang, Nan, Huang, Zuyi (Jacky)

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 776 KB

english, 2018

38

Critical Assessment of Parameter Estimation Methods in Models of Biological Oscillators

Pitt, Jake Alan, Gomoescu, Lucian, Pantelides, Constantinos C., Chachuat, Benoît, Banga, Julio R.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 746 KB

english, 2018

39

Mixed Integer Multiobjective Optimization Approaches for Systems and Synthetic Biology

Otero-Muras, Irene, Banga, Julio R.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 516 KB

english, 2018

40

Parameter Estimation by Picard-Iteration for Biochemical Networks with Noisy Data

Naber, Maike, Haeseler, Friedrich von, Rudolph, Nadine, Huber, Heinrich J., Findeisen, Rolf

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 556 KB

english, 2018

41

Adjusting Noise in the Genetic Toggle Switch through Stochastic Circuit Design

Hortsch, Sayuri K., Kremling, Andreas

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 566 KB

english, 2018

42

Host-circuit interactions explain unexpected behavior of a gene circuit.

Boada, Y., Vignoni, A., Oyarzún, D., Picó, J.

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 651 KB

english, 2018

43

Ensemble control for cell cycle synchronization of heterogeneous cell populations

Kuritz, Karsten, Imig, Dirke, Dyck, Michael, Allgöwer, Frank

Journal:

IFAC-PapersOnLine

Year:

2018

Language:

english

File:

PDF, 578 KB

english, 2018

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