James R Faeder: search on Z-Library

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51

[ACM Press the 2005 ACM symposium - Santa Fe, New Mexico (2005.03.13-2005.03.17)] Proceedings of the 2005 ACM symposium on Applied computing - SAC '05 - Graphical rule-based representation of signal-transduction networks

Faeder, James R., Blinov, Michael L., Hlavacek, William S.

Year:

2005

Language:

english

File:

PDF, 274 KB

english, 2005

52

[ACM Press the International Conference - Wshington DC, USA (2013.09.22-2013.09.25)] Proceedings of the International Conference on Bioinformatics, Computational Biology and Biomedical Informatics - BCB'13 - Studies of biological networks with statistical model checking

Miskov-Zivanov, Natasa, Zuliani, Paolo, Clarke, Edmund M., Faeder, James R.

Year:

2007

Language:

english

File:

PDF, 188 KB

english, 2007

53

Memory of Germinant Stimuli in Bacterial Spores

Wang, Shiwei, Faeder, James R., Setlow, Peter, Li, Yong-qing

Journal:

Year:

2015

Language:

english

File:

PDF, 1.95 MB

english, 2015

54

Reductionism Is Dead: Long Live Reductionism! Systems Modeling Needs Reductionist Experiments

Faeder, James R., Morel, Penelope A.

Journal:

Biophysical Journal

Year:

2016

Language:

english

File:

PDF, 407 KB

english, 2016

55

Unified Model of Synaptic Transmission

Kaya, Cihan, Liu, Bing, Faeder, James R., Bahar, Ivet

Journal:

Biophysical Journal

Year:

2015

Language:

english

File:

PDF, 40 KB

english, 2015

56

Multi-Scale Spatial Simulations Reveal the Effect of Dopamine Transporter Localization on Dopamine Neurotransmission

Kaya, Cihan, Block, Ethan R., Sorkin, Alexander, Faeder, James R., Bahar, Ivet

Journal:

Biophysical Journal

Year:

2016

Language:

english

File:

PDF, 40 KB

english, 2016

57

The eighth q-bio conference: meeting report and special issue preface

Hlavacek, William S, Gnanakaran, S, Munsky, Brian, Wall, Michael E, Faeder, James R, Jiang, Yi, Nemenman, Ilya, Resnekov, Orna

Journal:

Physical Biology

Year:

2015

Language:

english

File:

PDF, 244 KB

english, 2015

58

Translational Systems Biology: Introduction of an Engineering Approach to the Pathophysiology of the Burn Patient

An, Gary, Faeder, James, Vodovotz, Yoram

Journal:

Journal of Burn Care & Research

Year:

2008

Language:

english

File:

PDF, 196 KB

english, 2008

59

BioNetGen 2.2: Advances in Rule-Based Modeling

Harris, Leonard A., Hogg, Justin S., Tapia, José-Juan, Sekar, John A. P., Gupta, Sanjana, Korsunsky, Ilya, Arora, Arshi, Barua, Dipak, Sheehan, Robert P., Faeder, James R.

Journal:

Year:

2016

Language:

english

File:

PDF, 1.14 MB

english, 2016

60

Demystifying the cytokine network: Mathematical models point the way

Morel, Penelope A., Lee, Robin E.C., Faeder, James R.

Journal:

Year:

2016

Language:

english

File:

PDF, 711 KB

english, 2016

61

[IEEE 2016 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Shenzhen, China (2016.12.15-2016.12.18)] 2016 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Parameter estimation of rule-based models using statistical model checking

Liu, Bing, Faeder, James R.

Year:

2016

Language:

english

File:

PDF, 281 KB

english, 2016

62

[IEEE 2016 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Shenzhen, China (2016.12.15-2016.12.18)] 2016 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Energy-based modeling in BioNetGen

Sekar, John A.P., Hogg, Justin S., Faeder, James R.

Year:

2016

Language:

english

File:

PDF, 384 KB

english, 2016

63

Effect of Spatial Complexity on Dopaminergic Signaling Revealed from Multiscale Simulations

Kaya, Cihan, Cheng, Mary H., Block, Ethan R., Sorkin, Alexander, Faeder, James R., Bahar, Ivet

Journal:

Biophysical Journal

Year:

2017

Language:

english

File:

PDF, 45 KB

english, 2017

64

[IEEE 2016 IEEE International High Level Design Validation and Test Workshop (HLDVT) - Santa Cruz, CA, USA (2016.10.7-2016.10.8)] 2016 IEEE International High Level Design Validation and Test Workshop (HLDVT) - High-level modeling and verification of cellular signaling

Miskov-Zivanov, Natasa, Zuliani, Paolo, Wang, Qinsi, Clarke, Edmund M., Faeder, James R.

Year:

2016

Language:

english

File:

PDF, 1.32 MB

english, 2016

65

NF-κB Dynamics Discriminate between TNF Doses in Single Cells

Zhang, Qiuhong, Gupta, Sanjana, Schipper, David L., Kowalczyk, Gabriel J., Mancini, Allison E., Faeder, James R., Lee, Robin E.C.

Journal:

Year:

2017

Language:

english

File:

PDF, 9.12 MB

english, 2017

66

Unbiased Rare Event Sampling in Spatial Stochastic Systems Biology Models Using a Weighted Ensemble of Trajectories

Donovan, Rory M., Tapia, Jose-Juan, Sullivan, Devin P., Faeder, James R., Murphy, Robert F., Dittrich, Markus, Zuckerman, Daniel M., Meier-Schellersheim, Martin

Journal:

PLoS Computational Biology

Year:

2016

Language:

english

File:

PDF, 2.97 MB

english, 2016

67

[IEEE 2018 26th Euromicro International Conference on Parallel, Distributed and Network-based Processing (PDP) - Cambridge (2018.3.21-2018.3.23)] 2018 26th Euromicro International Conference on Parallel, Distributed and Network-based Processing (PDP) - Evaluation of Parallel Tempering to Accelerate Bayesian Parameter Estimation in Systems Biology

Gupta, Sanjana, Hainsworth, Liam, Hogg, Justin, Lee, Robin, Faeder, James

Year:

2018

Language:

english

File:

PDF, 598 KB

english, 2018

68

Structural organization and energy storage in crosslinked actin assemblies

Ma, Rui, Berro, Julien, Faeder, James R.

Journal:

PLoS Computational Biology

Year:

2018

Language:

english

File:

PDF, 21.85 MB

english, 2018

69

Shift from stochastic to spatially-ordered expression of serine-glycine synthesis enzymes in 3D microtumors

Singh, Manjulata, Warita, Katsuhiko, Warita, Tomoko, Faeder, James R., Lee, Robin E. C., Sant, Shilpa, Oltvai, Zoltán N.

Journal:

Scientific Reports

Year:

2018

Language:

english

File:

PDF, 7.45 MB

english, 2018

70

q-bio 2007: a watershed moment in modern biology

Edwards, Jeremy S, Faeder, James R, Hlavacek, William S, Jiang, Yi, Nemenman, Ilya, Wall, Michael E

Journal:

Molecular Systems Biology

Year:

2007

Language:

english

File:

PDF, 71 KB

english, 2007

71

The role of intracellular interactions in the collective polarization of tissues and its interplay with cellular geometry

Shadkhoo, Shahriar, Mani, Madhav, Faeder, James R.

Journal:

PLoS Computational Biology

Year:

2019

Language:

english

File:

PDF, 6.39 MB

english, 2019

72

The role of intracellular interactions in the collective polarization of tissues and its interplay with cellular geometry

Shadkhoo, Shahriar, Mani, Madhav, Faeder, James R.

Journal:

PLoS Computational Biology

Year:

2019

File:

PDF, 6.39 MB

2019

73

Parallel Tempering with Lasso for model reduction in systems biology

Gupta, Sanjana, Lee, Robin E. C., Faeder, James R., Finley, Stacey

Journal:

PLoS Computational Biology

Year:

2020

File:

PDF, 4.30 MB

2020

74

Stochastic ordering of complexoform protein assembly by genetic circuits

Jensen, Mikkel Herholdt, Morris, Eliza J., Tran, Hai, Nash, Michael A., Tan, Cheemeng, Faeder, James R.

Journal:

PLoS Computational Biology

Year:

2020

File:

PDF, 3.64 MB

2020

75

Perturbation biology links temporal protein changes to drug responses in a melanoma cell line

Nyman, Elin, Stein, Richard R., Jing, Xiaohong, Wang, Weiqing, Marks, Benjamin, Zervantonakis, Ioannis K., Korkut, Anil, Gauthier, Nicholas P., Sander, Chris, Faeder, James R.

Journal:

PLoS Computational Biology

Year:

2020

File:

PDF, 16.38 MB

2020

76

Effect of magnitude and variability of energy of activation in multisite ultrasensitive biochemical processes

Lagunes, Leonila, Bardwell, Lee, Enciso, German A., Faeder, James R.

Journal:

PLoS Computational Biology

Year:

2020

File:

PDF, 5.10 MB

2020

77

Modeling the activation of the alternative complement pathway and its effects on hemolysis in health and disease

Caruso, Antonello, Vollmer, Jannik, Machacek, Matthias, Kortvely, Elod, Faeder, James R.

Journal:

PLoS Computational Biology

Year:

2020

File:

PDF, 2.35 MB

2020

78

A bacterial size law revealed by a coarse-grained model of cell physiology

Bertaux, FranÃ§ois, von KÃ¼gelgen, Julius, Marguerat, Samuel, Shahrezaei, Vahid, Faeder, James R.

Journal:

PLoS Computational Biology

Year:

2020

File:

PDF, 1.85 MB

2020

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