| 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 | 3121 | 2006 |
| Biochemical simulations: stochastic, approximate stochastic and hybrid approaches J Pahle Briefings in bioinformatics 10 (1), 53-64, 2009 | 218 | 2009 |
| 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 | 125 | 2013 |
| 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 | 114 | 2014 |
| 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 | 105 | 2017 |
| 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 | 105 | 2005 |
| 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 | 77 | 2011 |
| 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 | 59 | 2008 |
| Biochemical fluctuations, optimisation and the linear noise approximation J Pahle, JD Challenger, P Mendes, AJ McKane BMC systems biology 6, 1-13, 2012 | 35 | 2012 |
| 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 | 29 | 2006 |
| 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 | 27 | 2020 |
| 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 | 16 | 2006 |
| Multi-compartment linear noise approximation JD Challenger, AJ McKane, J Pahle Journal of Statistical Mechanics: Theory and Experiment 2012 (11), P11010, 2012 | 13 | 2012 |
| Exploiting intrinsic fluctuations to identify model parameters C Zimmer, S Sahle, J Pahle IET systems biology 9 (2), 64-73, 2015 | 12 | 2015 |
| CoRC: the COPASI R connector J Förster, FT Bergmann, J Pahle Bioinformatics 37 (17), 2778-2779, 2021 | 9 | 2021 |
| 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 | 8 | 2019 |
| 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 | 7 | 2015 |
| Stochastic simulation and analysis of biochemical networks J Pahle Humboldt-Universität zu Berlin, Mathematisch-Naturwissenschaftliche Fakultät I, 2008 | 5 | 2008 |
| Requirements for band-pass activation of Ca2+-sensitive proteins such as NFAT A Schoch, J Pahle Biophysical chemistry 245, 41-52, 2019 | 4 | 2019 |
| 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 | 4 | 2007 |
Pedro MendesUniversity of ConnecticutVerified email at uchc.edu
