ulfliebal's library 314 articles Export

	On the Growth of Scientific Knowledge: Yeast Biology as a Case Study [My Copy] PLoS Comput Biol, Vol. 5, No. 3. (20 March 2009), e1000320. by Xionglei He, Jianzhi Zhang posted to knowledge-base yeast by ulfliebal on 2009-03-21 15:15:23 as along with 9 people and 5 groups Enro phoenixzxl VGreiff dolchan dbk jago dullhunk rdiaz davidchavalarias OER_Open_Educational_Resources Convention on Knowledge Commons Patent_Reform Integrative Expertise for Global Health Moma
	Automated sensitivity analysis of stiff biochemical systems using a fourth-order adaptive step size Rosenbrock integration method [My Copy] Systems Biology, IEE Proceedings, Vol. 153, No. 2. (2006), pp. 79-90. by R. Zou, A. Ghosh posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Comparative study of parameter sensitivity analyses of the TCR-activated Erk-MAPK signalling pathway [My Copy] IEE P Syst Biol, Vol. 153 (2006), pp. 201-211. by Y. Zheng, A. Rundell posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Coexpression Patterns of $\σ$B Regulators in Bacillus subtilis Affect $\σ$B Inducibility [My Copy] Journal of Bacteriology, Vol. 187, No. 24. (2005), pp. 8520-8525. by S. Zhang, A. Reeves, R. L. Woodbury, W. G. Haldenwang posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Contributions of ATP, GTP, and Redox State to Nutritional Stress Activation of the Bacillus subtilis $\σ$B Transcription Factor [My Copy] Journal of Bacteriology, Vol. 187, No. 22. (2005), pp. 7554-7560. by S. Zhang, W. G. Haldenwang posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Importance of Input Perturbations and Stochastic Gene Expression in the Reverse Engineering of Genetic Regulatory Networks: Insights From an Identifiability Analysis of an In Silico Network [My Copy] Genome Research, Vol. 13 (2003), pp. 2396-2405. by D. E. Zak, G. E. Gonye, J. S. Schwaber, F. J. Doyle posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Insights into the behaviour of systems biology models from dynamic sensitivity and identifiability analysis: a case study of an NF-B signalling pathway [My Copy] Molecular BioSystems, Vol. 2 (2006) by H. Yue, M. Brown, J. Knowles, H. Wang, D. S. Broomhead, D. B. Kell posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Opposing pairs of serine protein kinases and phosphatases transmit signals of environmental stress to activate a bacterial transcription factor [My Copy] Genes & Development, Vol. 10, No. 18. (1996), pp. 2265-2275. by X. Yang, C. M. Kang, M. S. Brody, C. W. Price posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Kinetic theory of bimolecular reactions in liquid. III. Reversible association--dissociation: A+ B - C [My Copy] The Journal of Chemical Physics, Vol. 108 (1998) by M. Yang, S. Lee, K. J. Shin posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Modelling and Simulation of IntraCellular Dynamics: Choosing an Appropriate Framework [My Copy] IEEE T Nanobiosci, Vol. 3, No. 3. (September 2004), pp. 200-207. by O. Wolkenhauer, M. Ullah, W. Kolch, K. H. Cho posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Motifs, modules and games in bacteria [My Copy] Current Opinion in Microbiology, Vol. 6, No. 2. (2003), pp. 125-134. by D. M. Wolf, A. P. Arkin posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Four additional genes in the sigB operon of Bacillus subtilis that control activity of the general stress factor sigma B in response to environmental signals [My Copy] Journal of Bacteriology, Vol. 177, No. 1. (1995), pp. 123-133. by A. A. Wise, C. W. Price posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Higher-Order Cellular Information Processing with Synthetic RNA Devices [My Copy] Science, Vol. 322, No. 5900. (2008) by M. N. Win, C. D. Smolke posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Selective Adaptation in Networks of Heterogeneous Populations: Model, Simulation, and Experiment [My Copy] PLoS Computational Biology, Vol. 4, No. 2. (Feb 2008) by A. Wallach, D. Eytan, S. Marom, R. Meir posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Design Principles for Regulator Gene Expression in a Repressible Gene Circuit [My Copy] Journal of Molecular Biology, Vol. 332, No. 4. (2003), pp. 861-876. by M. E. Wall, W. S. Hlavacek, M. A. Savageau posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Design of Gene Circuits: Lessons from Bacteria [My Copy] Nature Reviews: Genetics, Vol. 5, No. 1. (2004), pp. 34-42. by M. E. Wall, W. S. Hlavacek, M. A. Savageau posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	From bit to it: How a complex metabolic network transforms information into living matter. [My Copy] BMC Systems Biology, Vol. 1, No. 1. (2007) by A. Wagner posted to no-tag by ulfliebal on 2009-03-15 17:23:17 as
	Bayesian Ranking of Biochemical System Models [My Copy] Bioinformatics (2007) by V. Vyshemirsky, M. A. Girolami posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	A PP 2 C phosphatase containing a PAS domain is required to convey signals of energy stress to the sigmaB transcription factor of Bacillus subtilis [My Copy] Molecular Microbiology, Vol. 35, No. 1. (2000), pp. 180-188. by K. Vijay, M. S. Brody, E. Fredlund, C. W. Price posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Separate mechanisms activate sigma B of Bacillus subtilis in response to environmental and metabolic stresses [My Copy] Journal of Bacteriology, Vol. 177, No. 13. (1995), pp. 3771-3780. by U. Völker, A. Voelker, B. Maul, M. Hecker, A. Dufour, W. G. Haldenwang posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Reactivation of the Bacillus subtilis anti-sigma B antagonist, RsbV, by stress-or starvation-induced phosphatase activities [My Copy] Journal of Bacteriology, Vol. 178, No. 18. (1996), pp. 5456-5463. by U. Völker, A. Voelker, W. G. Haldenwang posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Expression of the $\σ$B-Dependent General Stress Regulon Confers Multiple Stress Resistance in Bacillus subtilis [My Copy] Journal of Bacteriology, Vol. 181, No. 13. (1999), pp. 3942-3948. by U. Völker, B. Maul, M. Hecker posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Stress activation of Bacillus subtilis sigma B can occur in the absence of the sigma B negative regulator RsbX [My Copy] Journal of Bacteriology, Vol. 179, No. 6. (1997), pp. 1980-1984. by U. Völker, T. Luo, N. Smirnova, W. Haldenwang posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Family tree of Markov models in systems biology [My Copy] IET Syst. Biol., Vol. 1, No. 4. (2007), pp. 247-254. by M. Ullah, O. Wolkenhauer posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Sniffers, buzzers, toggles and blinkers: dynamics of regulatory and signaling pathways in the cell [My Copy] Current Opinion in Cell Biology, Vol. 15, No. 2. (April 2003), pp. 221-231. by J. J. Tyson, K. C. Chen, B. Novak posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Stochastic Gene Expression in Fluctuating Environments [My Copy] Genetics, Vol. 167, No. 1. (2004), pp. 523-530. by M. Thattai, A. van Oudenaarden posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Oscillator Model Reduction Preserving the Phase Response: Application to the Circadian Clock [My Copy] Cell, Vol. 95, No. 4. (2008), pp. 1658-1673. by S. R. Taylor, F. J. Doyle, L. R. Petzold posted to circadian clock oscillation phase reduction sensitivity by ulfliebal on 2009-03-15 17:23:16 as
	PAS Domains: Internal Sensors of Oxygen, Redox Potential, and Light [My Copy] Microbiology and Molecular Biology Reviews, Vol. 63, No. 2. (1999), pp. 479-506. by B. L. Taylor, I. B. Zhulin posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Noise Reduction by Diffusional Dissipation in a Minimal Quorum Sensing Motif [My Copy] PLoS Computational Biology, Vol. 4, No. 8. (2008) by Y. Tanouchi, D. Tu, J. Kim, L. You posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Bacterial Stress Responses [My Copy] (2000) by G. Storz, Hengge R. Aronis posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Structural kinetic modeling of metabolic networks [My Copy] Proceedings of the National Academy of Science (USA), Vol. 103, No. 32. (August 2006), pp. 11868-11873. by R. Steuer, T. Gross, J. Selbig, B. Blasius posted to bifurcation calvin computational glycolysis metabolic metabolomic model-ensembles photosynthesis regulation robustness stability by ulfliebal on 2009-03-15 17:23:16 as
	PAS-A domain of phosphorelay sensor kinase A: A catalytic ATP-binding domain involved in the initiation of development in Bacillus subtilis [My Copy] Proceedings of the National Academy of Science (USA), Vol. 98, No. 26. (2001), pp. 15251-15256. by K. Stephenson, J. A. Hoch posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Robustness of Cellular Functions [My Copy] Cell, Vol. 118, No. 6. (September 2004), pp. 675-685. by J. Stelling, U. Sauer, Z. Szallasi, Iii F. J. Doyle, J. Doyle posted to no-tag by ulfliebal on 2009-03-15 17:23:16 as
	Metabolic network structure determines key aspects of functionality and regulation [My Copy] Nature, Vol. 420, No. 6912. (2002), pp. 190-193. by J. Stelling, S. Klamt, K. Bettenbrock, S. Schuster, E. D. Gilles posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Robustness properties of circadian clock architectures [My Copy] Proceedings of the National Academy of Science (USA), Vol. 101, No. 36. (2004), pp. 13210-13215. by J. Stelling, E. D. Gilles, F. J. Doyle posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	The evolution of fidelity in sensory systems [My Copy] Journal of Theoretical Biology, Vol. 253, No. 1. (2008), pp. 142-150. by A. T. Sornborger, M. R. Adams posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Global sensitivity indices for nonlinear mathematical models and their Monte Carlo estimates [My Copy] Mathematics and computers in simulation, Vol. 55, No. 1-3. (2001), pp. 271-280. by I. M. Sobol' posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Signal Discrimination by Differential Regulation of Protein Stability in Quorum Sensing [My Copy] Journal of Molecular Biology, Vol. 382, No. 5. (2008), pp. 1290-1297. by C. Smith, H. Song, L. You posted to communication degradation engineering gene kinetic modelling proofreading quorum-sensing regulation transcription by ulfliebal on 2009-03-15 17:23:15 as
	Modularity of stress response evolution [My Copy] Proceedings of the National Academy of Science (USA), Vol. 105, No. 21. (2008), pp. 7500-7505. by Amoolya H. Singh, Denise M. Wolf, Peggy Wang, Adam P. Arkin posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Probabilistic Boolean networks: a rule-based uncertainty model for gene regulatory networks [My Copy] Bioinformatics, Vol. 18, No. 2. (2002), pp. 261-274. by I. Shmulevich, E. R. Dougherty, S. Kim, W. Zhang posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Input output robustness in simple bacterial signaling systems [My Copy] Proceedings of the National Academy of Science (USA), Vol. 104, No. 50. (2007), pp. 19931-19935. by G. Shinar, R. Milo, M. R. Martinez, U. Alon posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Temperature dependence and temperature compensation of kinetics of chemical oscillations; Belousov-Zhabotinskii reaction, glycolysis and circadian rhythms [My Copy] Journal of Theoretical Biology, Vol. 250, No. 1. (2007), pp. 103-112. by S. Sen, S. S. Riaz, D. S. Ray posted to circadian glycolysis modelling oregonator oscillation temperature by ulfliebal on 2009-03-15 17:23:15 as
	Deterministic characterization of stochastic genetic circuits. [My Copy] Proceedings of the National Academy of Science (USA) (2007) by M. Scott, T. Hwa, B. Ingalls posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Stress Triggers a Process That Limits Activation of the Bacillus subtilis Stress Transcription Factor $\σ$B [My Copy] (2000) by J. M. Scott, T. Mitchell, W. G. Haldenwang posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	The Bacillus subtilis GTP Binding Protein Obg and Regulators of the $\σ$B Stress Response Transcription Factor Cofractionate with Ribosomes [My Copy] Journal of Bacteriology, Vol. 182, No. 10. (2000), pp. 2771-2777. by J. M. Scott, J. Ju, T. Mitchell, W. G. Haldenwang posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Obg, an Essential GTP Binding Protein of Bacillus subtilis, Is Necessary for Stress Activation of Transcription Factor $\σ$B [My Copy] Journal of Bacteriology, Vol. 181, No. 15. (1999), pp. 4653-4660. by J. M. Scott, W. G. Haldenwang posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Analysis of the expression and function of the s B-dependent general stress regulon of Bacillus subtilis during slow growth [My Copy] Archives of Microbiology, Vol. 171, No. 6. (1999), pp. 439-443. by T. Schweder, A. Kolyschkow, U. Völker, M. Hecker posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks [My Copy] Nature Biotechnology, Vol. 18 (2000), pp. 326-332. by S. Schuster, D. A. Fell, T. Dandekar posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Molecular level stochastic model for competence cycles in Bacillus subtilis [My Copy] Proceedings of the National Academy of Science (USA), Vol. 104, No. 45. (2007), pp. 17582-17587. by D. Schultz, Ben E. Jacob, J. N. Onuchic, P. G. Wolynes posted to no-tag by ulfliebal on 2009-03-15 17:23:15 as
	Network theory of microscopic and macroscopic behavior of master equation systems [My Copy] Reviews of Modern Physics, Vol. 48, No. 4. (1976), pp. 571-585. by J. Schnakenberg posted to no-tag by ulfliebal on 2009-03-15 17:23:14 as

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modelling	65
subtilis	61
sporulation	21
regulation	19
network	17
expression	16
stochastic	16
gene	15
metabolic	13
growth	13
transcription	12
engineering	11
bistability	10
competence	10
differentiation	9
patterns	9
colony	9
fba	8
sensitivity	8
feedback	8
evolution	8
switch	8
development	8
robustness	7
excitation	7
chemotaxis	6
microbial	6
reduction	6
noise	6
optimization	6
glycolysis	6
biotechnology	5
signalling	5
operon	5
subpopulation	5
diffusion	5
translation	5
coli	4
adaptation	4
localization	4
heterogeneity	4
oscillation	4
degradation	4
communication	3
homeostasis	3
fitness	3
signal	3
control	3
stoichiometric	3
genome	3
transduction	3
population	3
identification	3
qualitative	3
module	3
bifurcation	3
tca	3
motif	3
modules	3
topology	3
model-ensemble	2
networks	2
hybrid	2
interaction	2
metabolomics	2
membrane	2
parameter	2
receptor	2
database	2
systems	2
model-ensembles	2
synthetic	2
circadian	2
stress	2
recombinant	2
boolean	2
lattice	2
formal-semantics	2
markov	2
parametric	2
statistical	2
protein	2
single-cell	2
subtilisin	2
identifiability	2
reverse-eng	2
multicellularity	2
nonlinear	2
overflow	2
migration	2
memory	2
hysteresis	2
transcriptomics	2
graded	2
division	2
flux	2
hierarchical	2
subtilin	1
chemical	1
molecular	1
aging	1
temperature	1
aptamer	1
model	1
epidermal	1
proliferation	1
cellular-automaton	1
humans	1
carlo	1
response	1
secretion	1
kinetic	1
logic	1
matrix	1
hopf	1
starvation	1
promoter	1
apoptosis	1
thermococcus	1
biology	1
design	1
animals	1
pharmaceutic	1
asymmetry	1
topological	1
biocham	1
proofreading	1
fluctuating	1
metabolomic	1
pentose-phosphate-pathway	1
oregonator	1
allostery	1
transient	1
signaling	1
bi-fan	1
cluster	1
amino-acid	1
computational	1
photosynthesis	1
phenotype	1
environment	1
modeling	1
factor	1
calvin	1
stability	1
steady	1
bioenergy	1
clock	1
mathematical	1
stationary	1
phase	1
probability	1
adiabatic	1
discrete	1
isotopomer	1
xenopus	1
gradient	1
fractal	1
anabolism	1
robotics	1
software	1
coarse-grained	1
feedforward	1
dynamics	1
cytoplasm	1
pathway	1
complex	1
rnai	1
gtpase-cycle	1
ribosome	1
information-theoretic	1
knowledge-base	1
monte	1
nf-kappab	1
epigenetic	1
systems-biology	1
bioconvection	1
auto-stimulation	1
estimation	1
hierarchal	1
architecture	1
reduced-order	1
compartment	1
diagrams	1
maps	1
mca	1
coefficient	1
yeast	1
culture	1
method	1
large-scale	1
catabolism	1
enzymology	1
quorum-sensing	1
archaea	1
biologyexperimental	1
cooperativity	1
petri-net	1
biofilm	1
sobol	1
uncertainty	1
extracellular	1
signals	1
partner-switch	1
egfr	1
fta	1
tnfalpha	1
repressor	1
state	1

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