Herbert M SAURO: search on Z-Library

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1

Introduction to the Special Issue on Computational Synthetic Biology

Myers, Chris J., Sauro, Herbert, Wipat, Anil

Journal:

ACM Journal on Emerging Technologies in Computing Systems

Year:

2014

Language:

english

File:

PDF, 60 KB

english, 2014

2

Modeling Structure-Function Relationships in Synthetic DNA Sequences using Attribute Grammars

Cai, Yizhi, Lux, Matthew W., Adam, Laura, Peccoud, Jean, Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2009

Language:

english

File:

PDF, 592 KB

english, 2009

3

A Model for p53 Dynamics Triggered by DNA Damage

Chickarmane, Vijay, Ray, Animesh, Sauro, Herbert M., Nadim, Ali

Journal:

SIAM Journal on Applied Dynamical Systems

Year:

2007

Language:

english

File:

PDF, 434 KB

english, 2007

4

[IEEE 2006 Winter Simulation Conference - Monterey, CA, USA (2006.12.3-2006.12.6)] Proceedings of the 2006 Winter Simulation Conference - SBW - A Modular Framework for Systems Biology

Bergmann, Frank, Sauro, Herbert

Year:

2006

Language:

english

File:

PDF, 1.15 MB

english, 2006

5

A Reappraisal of How to Build Modular, Reusable Models of Biological Systems

Neal, Maxwell L., Cooling, Michael T., Smith, Lucian P., Thompson, Christopher T., Sauro, Herbert M., Carlson, Brian E., Cook, Daniel L., Gennari, John H., Nussinov, Ruth

Journal:

PLoS Computational Biology

Year:

2014

Language:

english

File:

PDF, 438 KB

english, 2014

6

SBML Reaction Finder: Retrieve and extract specific reactions from the BioModels database

Neal, Maxwell, Sauro, Herbert

Journal:

Bioentrepreneur

Year:

2012

File:

PDF, 197 KB

2012

7

Preliminary Studies on the In Silico Evolution of Biochemical Networks

Anastasia Deckard, Herbert M Sauro

Journal:

Year:

2004

Language:

english

File:

PDF, 289 KB

english, 2004

8

Conservation analysis in biochemical networks: computational issues for software writers

Herbert M. Sauro, Brian Ingalls

Journal:

Biophysical Chemistry

Year:

2004

Language:

english

File:

PDF, 396 KB

english, 2004

9

In vitrocontrol analysis of an enzyme system: Experimental and analytical developments

Herbert M. Sauro, John Barrett

Journal:

Molecular and Cellular Biochemistry

Year:

1995

Language:

english

File:

PDF, 849 KB

english, 1995

10

Synthetic biology: It's an analog world

Sauro, Herbert M., Kim, Kyung

Journal:

Year:

2013

Language:

english

File:

PDF, 246 KB

english, 2013

11

TinkerCell: modular CAD tool for synthetic biology

Deepak Chandran, Frank T Bergmann, Herbert M Sauro

Journal:

Journal of Biological Engineering

Year:

2009

Language:

english

File:

PDF, 2.68 MB

english, 2009

12

Visualization of Evolutionary Stability Dynamics and Competitive Fitness of Escherichia coli Engineered with Randomized Multigene Circuits

Sleight, Sean C., Sauro, Herbert M.

Journal:

ACS Synthetic Biology

Year:

2013

Language:

english

File:

PDF, 3.09 MB

english, 2013

13

[IEEE 2006 Winter Simulation Conference - Monterey, CA, USA (2006.12.3-2006.12.6)] Proceedings of the 2006 Winter Simulation Conference - Challenges for Modeling and Simulation Methods in Systems Biology

Sauro, Herbert, Harel, David, Kwiatkowska, Marta, Shaffer, Clifford, Uhrmacher, Adelinde, Hucka, Michael, Mendes, Pedro, Stromback, Lena, Tyson, John

Year:

2006

Language:

english

File:

PDF, 164 KB

english, 2006

14

The role of co-operativity in metabolism

SAURO, HERBERT M., FELL, DAVID A.

Journal:

Biochemical Society Transactions

Year:

1987

Language:

english

File:

PDF, 242 KB

english, 1987

15

A portable structural analysis library for reaction networks

Bedaso, Yosef, Bergmann, Frank T., Choi, Kiri, Medley, Kyle, Sauro, Herbert M.

Journal:

Year:

2018

Language:

english

File:

PDF, 835 KB

english, 2018

16

Rule-Based Cell Systems Model of Aging using Feedback Loop Motifs Mediated by Stress Responses

Kriete, Andres, Bosl, William J., Booker, Glenn, Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.21 MB

english, 2010

17

The Computational Versatility of Proteomic Signaling Networks

Journal:

Current Proteomics

Year:

2004

Language:

english

File:

PDF, 302 KB

english, 2004

18

Substrate cycles: do they really cause amplification?

FELL, DAVID A., SAURO, HERBERT M.

Journal:

Biochemical Society Transactions

Year:

1985

Language:

english

File:

PDF, 191 KB

english, 1985

19

Synthetic biology: How best to build a cell.

Collins, James J, Maxon, Mary, Ellington, Andy, Fussenegger, Martin, Weiss, Ron, Sauro, Herbert

Journal:

Year:

2014

Language:

english

File:

PDF, 2.66 MB

english, 2014

20

Randomized BioBrick Assembly: A Novel DNA Assembly Method for Randomizing and Optimizing Genetic Circuits and Metabolic Pathways

Sleight, Sean C., Sauro, Herbert M.

Journal:

ACS Synthetic Biology

Year:

2013

Language:

english

File:

PDF, 1.61 MB

english, 2013

21

Computational Tools for Modeling Protein Networks

Bergmann, Frank, Vallabhajosyula, Ravishankar, Sauro, Herbert

Journal:

Current Proteomics

Year:

2006

Language:

english

File:

PDF, 729 KB

english, 2006

22

In search of noise-induced bimodality

Kim, Kyung, Sauro, Herbert M

Journal:

Year:

2012

Language:

english

File:

PDF, 299 KB

english, 2012

23

Moiety-conserved cycles and metabolic control analysis: problems in sequestration and metabolic channelling

Herbert M. Sauro

Journal:

Year:

1994

Language:

english

File:

PDF, 1.14 MB

english, 1994

24

Computer-aided design of biological circuits using tinkercell

Chandran, Deepak, Bergmann, Frank T., Sauro, Herbert M.

Journal:

Bioengineered Bugs

Year:

2010

Language:

english

File:

PDF, 2.04 MB

english, 2010

25

Noise Management by Molecular Networks

Bruggeman, Frank J., Blüthgen, Nils, Westerhoff, Hans V., Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2009

Language:

english

File:

PDF, 328 KB

english, 2009

26

Minimum Criteria for DNA Damage-Induced Phase Advances in Circadian Rhythms

Hong, Christian I., Zámborszky, Judit, Csikász-Nagy, Attila, Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2009

Language:

english

File:

PDF, 277 KB

english, 2009

27

Essential information for synthetic DNA sequences

Peccoud, Jean, Anderson, J Christopher, Chandran, Deepak, Densmore, Douglas, Galdzicki, Michal, Lux, Matthew W, Rodriguez, Cesar A, Stan, Guy-Bart, Sauro, Herbert M

Journal:

Nature Biotechnology

Year:

2011

Language:

english

File:

PDF, 171 KB

english, 2011

28

Computational Systems Biology || Standards, Platforms, and Applications

Sauro, Herbert M.

Year:

2006

Language:

english

File:

PDF, 395 KB

english, 2006

29

Nonlinear biochemical signal processing via noise propagation

Kim, Kyung Hyuk, Qian, Hong, Sauro, Herbert M.

Journal:

The Journal of Chemical Physics

Year:

2013

Language:

english

File:

PDF, 771 KB

english, 2013

30

Context-Specific Metabolic Networks Are Consistent with Experiments

Becker, Scott A., Palsson, Bernhard O., Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2008

Language:

english

File:

PDF, 513 KB

english, 2008

31

Evolution of Evolvability in Gene Regulatory Networks

Crombach, Anton, Hogeweg, Paulien, Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2008

Language:

english

File:

PDF, 724 KB

english, 2008

32

A Hidden Feedback in Signaling Cascades Is Revealed

Ventura, Alejandra C., Sepulchre, Jacques-A., Merajver, Sofía D., Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2008

Language:

english

File:

PDF, 587 KB

english, 2008

33

Predicting the Distribution of Spiral Waves from Cell Properties in a Developmental-Path Model of Dictyostelium Pattern Formation

Geberth, Daniel, Hütt, Marc-Thorsten, Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2009

Language:

english

File:

PDF, 744 KB

english, 2009

34

Spatial Simulations of Myxobacterial Development

Holmes, Antony B., Kalvala, Sara, Whitworth, David E., Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.15 MB

english, 2010

35

A Visual Language for Protein Design

Cox, Robert Sidney, McLaughlin, James Alastair, Grünberg, Raik, Beal, Jacob, Wipat, Anil, Sauro, Herbert M.

Journal:

ACS Synthetic Biology

Year:

2017

Language:

english

File:

PDF, 392 KB

english, 2017

36

Modularity defined

Sauro, Herbert M

Journal:

Molecular Systems Biology

Year:

2008

Language:

english

File:

PDF, 83 KB

english, 2008

37

Transcriptional Dynamics of the Embryonic Stem Cell Switch

Chickarmane, Vijay, Troein, Carl, Nuber, Ulrike A., Sauro, Herbert M., Peterson, Carsten

Journal:

PLoS Computational Biology

Year:

2006

Language:

english

File:

PDF, 1014 KB

english, 2006

38

Metabolic control and its analysis : Additional relationships between elasticities and control coefficients

David A. FELL, Herbert M. SAURO

Journal:

Year:

1985

Language:

english

File:

PDF, 740 KB

english, 1985

39

Enzyme-enzyme interactions and control analysis : 1. The case of non-additivity: monomer-oligomer associations

Henrik KACSER, Herbert M SAURO, Luis ACERENZA

Journal:

Year:

1990

Language:

english

File:

PDF, 1.13 MB

english, 1990

40

Data Integration and Mining for Synthetic Biology Design

Misirli, Goksel, Hallinan, Jennifer, Pocock, Matthew, Lord, Phillip, McLaughlin, James Alastair, Sauro, Herbert, Wipat, Anil

Journal:

ACS Synthetic Biology

Year:

2016

Language:

english

File:

PDF, 1002 KB

english, 2016

41

Tellurium: An extensible python-based modeling environment for systems and synthetic biology

Choi, Kiri, Medley, J. Kyle, König, Matthias, Stocking, Kaylene, Smith, Lucian, Gu, Stanley, Sauro, Herbert M.

Journal:

Year:

2018

Language:

english

File:

PDF, 1.19 MB

english, 2018

42

Enzyme-enzyme interactions and control analysis : 2. The case of non-independence: heterologous associations

Herbert M. SAURO, Henrik KACSER

Journal:

Year:

1990

Language:

english

File:

PDF, 797 KB

english, 1990

43

A Predictive Model of the Oxygen and Heme Regulatory Network in Yeast

Kundaje, Anshul, Xin, Xiantong, Lan, Changgui, Lianoglou, Steve, Zhou, Mei, Zhang, Li, Leslie, Christina, Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2008

Language:

english

File:

PDF, 1.54 MB

english, 2008

44

Spontaneous Reaction Silencing in Metabolic Optimization

Nishikawa, Takashi, Gulbahce, Natali, Motter, Adilson E., Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2008

Language:

english

File:

PDF, 510 KB

english, 2008

45

Next Generation Simulation Tools: The Systems Biology Workbench and BioSPICE Integration

Sauro, Herbert M., Hucka, Michael, Finney, Andrew, Wellock, Cameron, Bolouri, Hamid, Doyle, John, Kitano, Hiroaki

Journal:

Omics A Journal of Integrative Biology

Year:

2003

Language:

english

File:

PDF, 523 KB

english, 2003

46

Modeling the Effects of Cell Cycle M-phase Transcriptional Inhibition on Circadian Oscillation

Kang, Bin, Li, Yuan-Yuan, Chang, Xiao, Liu, Lei, Li, Yi-Xue, Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2008

Language:

english

File:

PDF, 508 KB

english, 2008

47

Putting the “Control” in Metabolic Control Analysis

Rao, Christopher V., Sauro, Herbert M., Arkin, Adam P.

Journal:

IFAC Proceedings Volumes

Year:

2004

Language:

english

File:

PDF, 6.72 MB

english, 2004

48

Tellurium notebooks—An environment for reproducible dynamical modeling in systems biology

Medley, J. Kyle, Choi, Kiri, König, Matthias, Smith, Lucian, Gu, Stanley, Hellerstein, Joseph, Sealfon, Stuart C., Sauro, Herbert M., Prlic, Andreas

Journal:

PLoS Computational Biology

Year:

2018

Language:

english

File:

PDF, 6.85 MB

english, 2018

49

Global Entrainment of Transcriptional Systems to Periodic Inputs

Russo, Giovanni, di Bernardo, Mario, Sontag, Eduardo D., Sauro, Herbert M.

Journal:

PLoS Computational Biology

Year:

2010

Language:

english

File:

PDF, 1.64 MB

english, 2010

50

[ACM Press the International Conference - San Jose, California (2012.11.05-2012.11.08)] Proceedings of the International Conference on Computer-Aided Design - ICCAD '12 - Modeling and design automation of biological circuits and systems

Miskov-Zivanov, Natasa, Faeder, James R., Myers, Chris J., Sauro, Herbert M.

Year:

2012

Language:

english

File:

PDF, 345 KB

english, 2012

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