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Jürgen Pahle
Jürgen Pahle
Independent Group Leader, Heidelberg University, Germany
Verified email at bioquant.uni-heidelberg.de - Homepage
Title
Cited by
Cited by
Year
COPASI—a complex pathway simulator
S Hoops, S Sahle, R Gauges, C Lee, J Pahle, N Simus, M Singhal, L Xu, ...
Bioinformatics 22 (24), 3067-3074, 2006
30152006
Biochemical simulations: stochastic, approximate stochastic and hybrid approaches
J Pahle
Briefings in bioinformatics 10 (1), 53-64, 2009
2152009
An in vivo control map for the eukaryotic mRNA translation machinery
H Firczuk, S Kannambath, J Pahle, A Claydon, R Beynon, J Duncan, ...
Molecular systems biology 9 (1), 635, 2013
1222013
Zinc depletion regulates the processing and secretion of IL-1β
H Summersgill, H England, G Lopez-Castejon, CB Lawrence, ...
Cell death & disease 5 (1), e1040-e1040, 2014
1082014
Transition from stochastic to deterministic behavior in calcium oscillations
U Kummer, B Krajnc, J Pahle, AK Green, CJ Dixon, M Marhl
Biophysical journal 89 (3), 1603-1611, 2005
1052005
COPASI and its applications in biotechnology
FT Bergmann, S Hoops, B Klahn, U Kummer, P Mendes, J Pahle, S Sahle
Journal of biotechnology 261, 215-220, 2017
972017
Efficient discovery of anti-inflammatory small-molecule combinations using evolutionary computing
BG Small, BW McColl, R Allmendinger, J Pahle, G López-Castejón, ...
Nature Chemical Biology 7 (12), 902-908, 2011
772011
Information transfer in signaling pathways: a study using coupled simulated and experimental data
J Pahle, AK Green, CJ Dixon, U Kummer
BMC bioinformatics 9, 1-14, 2008
582008
Biochemical fluctuations, optimisation and the linear noise approximation
J Pahle, JD Challenger, P Mendes, AJ McKane
BMC systems biology 6, 1-13, 2012
352012
Simulation of biochemical networks using copasi-a complex pathway simulator
S Sahle, R Gauges, J Pahle, N Simus, U Kummer, S Hoops, C Lee, ...
Proceedings of the 2006 Winter Simulation Conference, 1698-1706, 2006
292006
Mechanistic modeling and multiscale applications for precision medicine: theory and practice
E Stalidzans, M Zanin, P Tieri, F Castiglione, A Polster, S Scheiner, ...
Network and systems medicine 3 (1), 36-56, 2020
222020
Approaches to complexity reduction in a systems biology research environment (SYCAMORE)
I Surovtsova, S Sahle, J Pahle, U Kummer
Proceedings of the 2006 Winter Simulation Conference, 1683-1689, 2006
162006
Multi-compartment linear noise approximation
JD Challenger, AJ McKane, J Pahle
Journal of Statistical Mechanics: Theory and Experiment 2012 (11), P11010, 2012
132012
Exploiting intrinsic fluctuations to identify model parameters
C Zimmer, S Sahle, J Pahle
IET systems biology 9 (2), 64-73, 2015
122015
CoRC: the COPASI R connector
J Förster, FT Bergmann, J Pahle
Bioinformatics 37 (17), 2778-2779, 2021
82021
Data management in computational systems biology: exploring standards, tools, databases, and packaging best practices
NJ Stanford, M Scharm, PD Dobson, M Golebiewski, M Hucka, ...
Yeast Systems Biology: Methods and Protocols, 285-314, 2019
72019
PKC‐mediated inhibitory feedback of the cholecystokinin 1 receptor controls the shape of oscillatory Ca2+ signals
PHGM Willems, J Pahle, XL Stalpers, D Mugahid, A Nikolaew, ...
The FEBS journal 282 (11), 2187-2201, 2015
72015
Stochastic simulation and analysis of biochemical networks
J Pahle
Humboldt-Universität zu Berlin, Mathematisch-Naturwissenschaftliche Fakultät I, 2008
52008
Requirements for band-pass activation of Ca2+-sensitive proteins such as NFAT
A Schoch, J Pahle
Biophysical chemistry 245, 41-52, 2019
42019
Effects of simulated brain damage on small-world neural networks
K Fortney, J Pahle, J Delgado, G Obernosterer, V Shah, M Wojnowicz, ...
Proceedings of the Santa Fe Institute Complex Systems Summer School, 2007
42007
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Articles 1–20