Blättern nach Person

Falk, Johannes ; Bronstein, L. ; Hanst, M. ; Drossel, Barbara ; Koeppl, H. :
Context in synthetic biology: Memory effects of environments with mono-molecular reactions.
In: The Journal of Chemical Physics ISSN 0021-9606
[Artikel] , (2019)

Linzner, D. ; Koeppl, H. :
Cluster Variational Approximations for Structure Learning of Continuous-Time Bayesian Networks from Incomplete Data.
In: 32. Conference on Neural Information Processing Systems, December 3-8, 2018, Montreal, Canada.
[ Konferenzveröffentlichung] , (2018) ((Noch) nicht publiziert)

Falk, J. ; Bronstein, L. ; Hanst, M. ; Drossel, B. ; Koeppl, H. :
Context in Synthetic Biology: Memory Effets of Environments with Mono-molecular Reactions.
[Online-Edition: https://aip.scitation.org/doi/10.1063/1.5053816]
In: Journal of Chemical Physics, 150 (2)
[Artikel] , (2018)

Hofmann, Anja ; Falk, Johannes ; Prangemeier, Tim ; Happel, Dominic ; Köber, Adrian ; Christmann, Andreas ; Koeppl, H. ; Kolmar, Harald :
A tightly regulated and adjustable CRISPR-dCas9 based AND gate in yeast.
In: Nucleic acids research ISSN 0305-1048
[Artikel] , (2018)

Yang, S. ; Koeppl, H. :
Collapsed Variational Inference for Nonparametric Bayesian Group Factor Analysis.
In: IEEE International Conference on Data Mining (ICDM'18), 17.-20. November 2018, Singapore.
[ Konferenzveröffentlichung] , (2018)

Al-Sayed, S. ; Koeppl, H. :
Network Reconstruction from Time-Course Perturbation Data Using Multivariate Gaussian Processes.
[Online-Edition: https://ieeexplore.ieee.org/xpl/mostRecentIssue.jsp?filter=i...]
In: IEEE International Workshop on Machine Learning for Signal Processing, 17.-20. September 2018, Aalborg, Denmark. IEEE International Workshop on Machine Learning for Signal Processing
[ Konferenzveröffentlichung] , (2018)

Sulaimanov, N. ; Koeppl, H. ; Burdet, F. ; Ibberson, M. ; Pagni, M. ; Kumar, S. :
Inferring gene expression networks with hubs using a degree weighted Lasso approach.
[Online-Edition: https://academic.oup.com/bioinformatics/advance-article/doi/...]
In: Bioinformatics (Oxford, England), bty716 ISSN 1367-4803
[Artikel] , (2018)

Kruk, N. ; Koeppl, H. ; Maistrenko, Y. :
Self-propelled Chimeras.
In: Physical Review E ISSN 2470-0045
[Artikel] , (2018)

Yang, S. ; Koeppl, H. :
Dependent Relational Gamma Process Models for Longitudinal Networks.
[Online-Edition: https://icml.cc/Conferences/2018/Schedule?showEvent=1942]
In: Thirty-fifth International Conference on Machine Learning, July 10-15, 2018, Stockholm, Denmark. In: Proceedings of Machine Learning Research , 80
[ Konferenzveröffentlichung] , (2018)

Bronstein, L. ; Koeppl, H. :
Marginal process framework: A model reduction tool for Markov jump processes.
[Online-Edition: https://journals.aps.org/pre/abstract/10.1103/PhysRevE.97.06...]
In: Physical Review E, E 97, 062147 ISSN 2470-0045
[Artikel] , (2018)

Šošić, A. ; Zoubir, A. M. ; Koeppl, H. :
A Bayesian Approach to Policy Recognition and State Representation Learning.
[Online-Edition: https://doi.org/10.1109/TPAMI.2017.2711024]
In: IEEE Transactions on Pattern Analysis and Machine Intelligence, 40 (6) S. 1295-1308.
[Artikel] , (2018)

Šošić, A. ; Zoubir, A. M. ; Koeppl, H. :
Reinforcement Learning in a Continuum of Agents.
[Online-Edition: http://rdcu.be/wKay]
In: Swarm Intelligence, 12 (1) S. 23-51.
[Artikel] , (2018)

Bronstein, L. ; Koeppl, H. :
A variational approach to moment-closure approximations for the kinetics of biomolecular reaction networks.
[Online-Edition: http://aip.scitation.org/doi/10.1063/1.5003892]
In: The Journal of Chemical Physics, 148 (1) ISSN 00219606
[Artikel] , (2018)

Šošić, A. ; Rueckert, E. ; Peters, J. ; Zoubir, A. M. ; Koeppl, H. :
Inverse Reinforcement Learning via Nonparametric Spatio-Temporal Subgoal Modeling.
[Online-Edition: http://www.jmlr.org/papers/volume19/18-113/18-113.pdf]
In: Journal of Machine Learning Research, 19 (69) S. 1-45.
[Artikel] , (2018)

Šošić, A. ; Zoubir, A. M. ; Koeppl, H. :
Inverse Reinforcement Learning via Nonparametric Subgoal Modeling.
[Online-Edition: https://aaai.org/ocs/index.php/SSS/SSS18/paper/view/17531/15...]
In: AAAI Spring Symposium on Data-Efficient Reinforcement Learning .
[ Konferenzveröffentlichung] , (2018)

Yang, S. ; Koeppl, H. :
A Poisson Gamma Probabilistic Model for Latent Node-group Memberships in Dynamic Networks.
In: AAAI 2018, Association for the Advancement of Artificial Intelligence, 2018, New Orleans.
[ Konferenzveröffentlichung] , (2018)

KhudaBukhsh, W. R. ; Rizk, A. ; Froemmgen, A. ; Koeppl, H. :
Optimizing Stochastic Scheduling in Fork-Join Queueing Models: Bounds and Applications.
[Online-Edition: https://arxiv.org/abs/1612.05486]
In: Technical Program of IEEE INFOCOM 2017
[Artikel] , (2017)

KhudaBukhsh, W. R. ; Rizk, A. ; Froemmgen, A. ; Koeppl, H. :
Optimizing Stochastic Scheduling in Fork-Join Queueing Models: Bounds and Applications.
[Online-Edition: http://tubiblio.ulb.tu-darmstadt.de/84610/]
In: Technical Program of IEEE INFOCOM 2017
[Artikel] , (2017)

Ruess, J. ; Koeppl, H. ; Zechner, C. :
Sensitivity estimation for stochastic models of biochemical reaction networks in the presence of extrinsic variability.
[Online-Edition: http://aip.scitation.org/doi/10.1063/1.4978940]
In: The Journal of Chemical Physics, 146 (124122)
[Artikel] , (2017)

KhudaBukhsh, W. R. ; Woroszylo, C. ; Rempala, G. A. ; Koeppl, H. :
Functional Central Limit Theorem for Susceptible-Infected Process On Configuration Model Graphs.
In: Annals of Applied Probability (under review)
[Artikel] , (2017)

KhudaBukhsh, W.R. ; Kar, S. ; Rizk, A. ; Koeppl, H. :
A Generalized Performance Evaluation Framework for Parallel Systems with Output Synchronization.
In: IFIP International Conference on Networking (under review).
[ Konferenzveröffentlichung] , (2017)

Šošić, A. ; KhudaBukhsh, W. R. ; Zoubir, A. M. ; Koeppl, H. :
Inverse Reinforcement Learning in Swarm Systems.
In: AAMAS Workshop on Transfer in Reinforcement Learning .
[ Konferenzveröffentlichung] , (2017)

Šošić, A. ; KhudaBukhsh, W. R. ; Zoubir, A. M. ; Koeppl, H. :
Inverse Reinforcement Learning in Swarm Systems (Best Paper Award Finalist).
[Online-Edition: http://dl.acm.org/citation.cfm?id=3091320]
In: International Conference on Autonomous Agents and Multiagent Systems .
[ Konferenzveröffentlichung] , (2017)

Bronstein, L. ; Diemer, J. ; Koeppl, H. ; Schneider, C. ; Suess, Beatrix :
ROC'n'Ribo: Characterizing a riboswitching expression system by modeling single-cell data.
[Online-Edition: http://pubs.acs.org/doi/10.1021/acssynbio.6b00322]
In: ACS Synthetic Biology (7) S. 1211-1224. ISSN 2161-5063
[Artikel] , (2017)

Bronstein, L. ; Koeppl, H. :
Scalable inference using PMCMC and parallel tempering for high-throughput measurements of biomolecular reaction networks.
[Online-Edition: http://ieeexplore.ieee.org/document/7798361/#full-text-secti...]
In: 55th IEEE Conference on Decision and Control, December 2016, Las Vegas.
[ Konferenzveröffentlichung] , (2016)

Sulaimanov, N. ; Koeppl, H. :
Graph reconstruction using covariance based methods.
[Online-Edition: http://bsb.eurasipjournals.springeropen.com/articles/10.1186...]
In: EURASIP Journal on Bioinformatics and Systems Biology
[Artikel] , (2016)

Bronstein, L. ; Koeppl, H. :
A Diagram Technique for cumulant equations in biomolecular reaction networks with mass-action kinetics.
[Online-Edition: http://ieeexplore.ieee.org/document/7799170/?part=1]
In: 55th IEEE Conference on Decision and Control, December 2016, Las Vegas, USA.
[ Konferenzveröffentlichung] , (2016)

Ganguly, A. ; Altintan, D. ; Koeppl, H. :
Efficient Simulation of Multiscale Reaction.
In: American Control Conference, Juli 2016, Boston.
[ Konferenzveröffentlichung] , (2016)

Hill, S. M. ; Heiser, L. M. ; Cokalaer, T. ; Unger, M. ; Nesser, N. K. ; Carlin, D. E. ; Zhang, Y. ; Sokolov, A. ; Paull, E. O. ; Wong, C. K. ; Graim, K. ; Bivol, A. ; Wang, H. ; Zhu, F. ; Afsari, B. ; Danilova, L. V. ; Favorov, A. V. ; Lee, W. S. ; Taylor, D. ; Hu, C. W. ; Long, B. L. ; Noren, D. P. ; Bisberg, A. J. ; Mills, G. B. ; Gray, J. W. ; Kellen, M. ; Norman, T. ; Friend, S. ; Qutub, A. A. ; Fertig, E. J. ; Guan, Y. ; Song, M. ; Stuart, J. M. ; Spellman, P. T. ; Koeppl, H. ; Stolovitzky, G. ; Saez-Rodriguez, J. ; Mukherjee, S. :
Interferring causal molecular networks: empirical assessment through a community-based effort.
[Online-Edition: http://www.nature.com/nmeth/journal/vaop/ncurrent/full/nmeth...]
In: Nature methods
[Artikel] , (2016)

Studer, L. ; Paulevé, L. ; Zechner, C. ; Reumann, M. ; Rodriguez Martinez, M. ; Koeppl, H. :
Marginalized Continuous Time Bayesian Networks for Network Reconstruction from Incomplete Observations.
[Online-Edition: http://www.aaai.org/ocs/index.php/AAAI/AAAI16/paper/view/123...]
In: AAAI, Association for the Advancement of Artificial Intelligence, 12.-17.02.2016, Phoenix, USA. Phoenix, USA
[ Konferenzveröffentlichung] , (2016)

KhudaBukhsh, W. R. ; Rueckert, J. ; Wulfheide, J. ; Hausheer, D. ; Koeppl, H. :
Analysing and Leveraging Client Heterogeneity in Swarming-based Live Streaming.
[Online-Edition: http://dl.ifip.org/db/conf/networking/networking2016/1570236...]
In: IFIP International Conference on Networking, Mai 2016, Wien, Austria. IFIP International Conference on Networking (NETWORKING)
[ Konferenzveröffentlichung] , (2016)

KhudaBukhsh, W. R. ; Rueckert, J. ; Wulfheide, J. ; Hausheer, D. ; Koeppl, H. :
Analysing and Leveraging Client Heterogeneity in Swarming-based Live Streaming.
[Online-Edition: http://tubiblio.ulb.tu-darmstadt.de/83371/]
In: IFIP International Conference on Networking (NETWORKING).
[ Konferenzveröffentlichung] , (2016)

Richerzhagen, B. ; Wulfheide, J. ; Koeppl, H. ; Mauthe, A. U. ; Nahrstedt, K. ; Steinmetz, R. :
Enabling Crowdsourced Live Event Coverage with Adaptive Collaborative Upload Strategies.
2016 IEEE 17th International Symposium on "A World of Wireless, Mobile and Multimedia Networks" (WoWMoM) Coimbra, Portugal
[ Konferenzveröffentlichung] , (2016)

Šošić, A. ; Zoubir, A. M. ; Koeppl, H. :
Policy Recognition via Expectation Maximization.
[Online-Edition: https://doi.org/10.1109/icassp.2016.7472589]
In: IEEE International Conference on Acoustics, Speech and Signal Processing.
[ Konferenzveröffentlichung] , (2016)

Huang, L. ; Hansen, A. S. ; Pauleve, L. ; Unger, M. ; Zechner, C. ; Koeppl, H. :
Reconstructing dynamic molecular states from single-cell time series.
[Online-Edition: http://rsif.royalsocietypublishing.org/content/13/122/201605...]
In: Journal of The Royal Society Interface ISSN 1742-5689
[Artikel] , (2016)

Sutter, T. ; Ganguly, A. ; Koeppl, H. :
A variational approach to path estimation and parameter inference of hidden diffusion processes.
[Online-Edition: http://jmlr.org/papers/v17/16-075.html]
In: Journal of Machine Learning Research
[Artikel] , (2016)

Hegemann, B. ; Unger, M. ; Lee, S. S. ; Stoffel-Studer, I. ; van den Heuvel, J. ; Pelet, S. ; Koeppl, H. ; Peter, M. :
A Cellular System for Spatial Signal Decoding in Chemical Gradients.
[Online-Edition: http://www.cell.com/developmental-cell/fulltext/S1534-5807%2...]
In: Developmental Cell, 35 (4) S. 458-470.
[Artikel] , (2015)

Huang, L. ; Hjalmarsson, H. ; Koeppl, H. :
Almost sure stability and stabilization of discrete-time stochastic systems.
[Online-Edition: http://www.sciencedirect.com/science/article/pii/S0167691115...]
In: Systems & Control Letters, 82 S. 26-32.
[Artikel] , (2015)

Altintan, D. ; Ganguly, A. ; Koeppl, H. :
Error bound and simulation algorithm for piecewise deterministic approximations of stochastic reaction systems.
[Online-Edition: http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=7170830]
In: American Control Conference (ACC), 2015, 1-3 July 2015, Chicago. American Control Conference (ACC), 2015
[ Konferenzveröffentlichung] , (2015)

Bronstein, L. ; Zechner, C. ; Koeppl, H. :
Bayesian inference of reaction kinetics from single-cell recordings across a heterogeneous cell population.
[Online-Edition: http://www.sciencedirect.com/science/journal/aip/10462023]
In: ScienceDirect - Methods
[Artikel] , (2015)

KhudaBukhsh, W. R. ; Rueckert, J. ; Wulfheide, J. ; Hausheer, D. ; Koeppl, H.
KhudaBukhsh W. R. (ed.) :
A Comprehensive Analysis of Swarming-based Live Streaming to Leverage Client Heterogenieity.
[Online-Edition: http://www.bcs.tu-darmstadt.de/biocomm/people_1/phdstudents/...]
KhudaBukhsh W. R. (.) In: Technical Report . Technische Universität Darmstadt , Darmstadt
[Report] , (2015)

Altintan, D. ; Ganguly, A. ; Koeppl, H. :
Jump-Diffusion Approximation of Stochastic Reaction Dynamics: Error bounds and Algorithms.
[Online-Edition: http://arxiv.org/abs/1409.4303]
In: SIAM Multiscale Modeling and Simulation ISSN 1540-3459
[Artikel] , (2015)

Koeppl, H. ; Zechner, C. :
Uncoupled analysis of stochastic reaction networks in fluctuating environments.
[Online-Edition: http://journals.plos.org/ploscompbiol/article?id=10.1371/jou...]
In: PLOS Computational Biology, 10 (12) ISSN 1476-928X
[Artikel] , (2014)

Koeppl, H. ; Hafner, M. ; Lu, J. :
From Specification to Parameters: A Linearization Approach.
[Online-Edition: http://link.springer.com/chapter/10.1007/978-94-017-9047-5_1...]
In: A Systems Theoretic Approach to Systems and Synthetic Biology II: Analysis and Design of Cellular Systems. Springer, Netherlands , S. 245-256. ISBN 978-94-017-9046-8
[Buchkapitel] , (2014)

Zechner, C. ; Unger, M. ; Pelet, S. ; Peter, M. ; Koeppl, H. :
Scalable inference of heterogeneous reaction kinetics from pooled single-cell recordings.
[Online-Edition: http://www.nature.com/nmeth/journal/v11/n2/full/nmeth.2794.h...]
In: Nature methods, 11 (2) S. 197-202.
[Artikel] , (2014)

Zechner, C. ; Wadehn, F. ; Koeppl, H. :
Sparse learning of Markovian population models in random environments.
[Online-Edition: http://arxiv.org/abs/1401.4026]
In: IFAC 2014, The 19th World Congress of the International Federation of Automatic Control, Promoting automatic control for the benefit of humankind, 24-29 August 2014, Cape Town, South Africa. Cornell
[ Konferenzveröffentlichung] , (2014)

Geiger, B. C. ; Petrov, T. ; Kubin, G. ; Koeppl, H. :
Optimal Kullback-Leibler Aggregation via Information Bottleneck.
[Online-Edition: http://ieeexplore.ieee.org/xpl/articleDetails.jsp?arnumber=6...]
In: IEEE Transactions on Automatic Control ISSN 0018-9286
[Artikel] , (2014)

Ganguly, A. ; Petrov, T. ; Koeppl, H. :
Markov chain aggregation and its applications to combinatorial reaction networks.
[Online-Edition: http://link.springer.com/article/10.1007/s00285-013-0738-7]
In: Journal of mathematical biology, 69 (3) S. 767-797.
[Artikel] , (2013)

Tarca, A. L. ; Lauria, M. ; Unger, M. ; Bilal, E. ; Boue, S. ; Kumar Dey, K. ; Hoeng, J. ; Koeppl, H. ; Martin, F. ; Meyer, P. ; Nandy, P. ; Norel, R. ; Peitsch, M. ; Rice, J. ; Romero, R. ; Stolovitzky, G. ; Talikka, M. ; Xiang, Y. ; Zechner, C. :
Strengths and limitations of microarray-based phenotype prediction: lessons learned from the IMPROVER Diagnostic Signature Challenge.
[Online-Edition: http://www.ncbi.nlm.nih.gov/pubmed/23966112]
In: Bioinformatics (Oxford, England), 29 (22) S. 2892-2899.
[Artikel] , (2013)

de Heras Ciechomski, P. ; Klann, M. ; Mange, R. ; Koeppl, H. :
From biochemical reaction networks to 3D dynamics in the cell: The ZigCell3D modeling, simulation and visualisation framework.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: IEEE Symposium on Biological Data Visualization (BioVis) S. 41-48.
[Artikel] , (2013)

Klann, M. ; Koeppl, H. :
Reaction schemes, escape times and geminate recombinations in particle-based spatial simulations of biochemical reactions.
[Online-Edition: http://iopscience.iop.org/1478-3975/10/4/046005/article]
In: Physical biology, 10 (4) 046005.
[Artikel] , (2013)

Lu, J. ; August, E. ; Koeppl, H. :
Inverse problems from biomedicine : Inference of putative disease mechanisms and robust therapeutic strategies.
[Online-Edition: http://link.springer.com/article/10.1007/s00285-012-0523-z]
In: Journal of mathematical biology, 67 (1) S. 143-168. ISSN 0303-6812
[Artikel] , (2013)

Paulevé, L. ; Craciun, G. ; Koeppl, H. :
Dynamical properties of Discrete Reaction Networks.
[Online-Edition: http://arxiv.org/abs/1302.3363]
In: Journal of mathematical biology
[Artikel] , (2013)

Nandy, P. ; Unger, M. ; Zechner, C. ; Dey, K. ; Koeppl, H. :
Learning diagnostic signatures from microarray data using Ll-regularized logistic regression.
[Online-Edition: http://www.tandfonline.com/doi/full/10.4161/sysb.25271?mobil...]
In: Systems Biomedicine, 1 (4)
[Artikel] , (2013)

Koeppl, H. ; Petrov, T. :
Approximate model reductions for combinatorial reaction systems; European Control Conferenc (ECC 2013).
[Online-Edition: http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=6669734...]
In: European Control Conferenc (ECC 2013), 17-19 July 2013, Zuerich.
[ Konferenzveröffentlichung] , (2013)

Klann, M. ; Paulevé, L. ; Petrov, T. ; Koeppl, H. :
Coarse-Grained Brownian Dynamics Simulation of Rule-Based Models.
[Online-Edition: http://link.springer.com/chapter/10.1007/978-3-642-40708-6_6...]
In: 11th International Conference on Computational Methods in Systems Biology (CMSB 2013). Springer Berlin Heidelberg
[ Konferenzveröffentlichung] , (2013)

Koeppl, H. ; Hafner, M. ; Lu, J. :
Mapping behavioral specifications to model parameters in synthetic biology.
[Online-Edition: http://www.biomedcentral.com/1471-2105/14/S10/S9]
In: BMC Bioinformatics, 14 S9.
[Artikel] , (2013)

Zechner, C. ; Deb, S. ; Koeppl, H. :
Marginal dynamics of stochastic biochemical networks in random environments.
[Online-Edition: http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=6669606]
In: 2013 European Control Conference (ECC), 2013, Zürich. IEEE
[ Konferenzveröffentlichung] , (2013)

Feret, J. ; Koeppl, H. ; Petrov, T. :
Stochastic fragments: A framework for the exact reduction of the stochastic semantics of rule-based models.
[Online-Edition: http://www.ijsi.org/ch/reader/view_abstract.aspx?file_no=i17...]
In: International Journal of Software and Informatics, 7 (4) S. 527-604.
[Artikel] , (2013)

Paulevé, L. ; Andrieux, G. ; Koeppl, H. :
Under-approximating cut sets for reachability in large scale automata Networks.
[Online-Edition: http://link.springer.com/chapter/10.1007%2F978-3-642-39799-8...]
In: 25th International Conference on Computer Aided Verification (CAV 2013). Springer
[ Konferenzveröffentlichung] , (2013)

August, E. ; Koeppl, H. :
Computing enclosures for uncertain biochemical systems.
[Online-Edition: http://digital-library.theiet.org/content/journals/10.1049/i...]
In: IET Systems Biology, 6 (6) S. 232-240.
[Artikel] , (2012)

August, E. ; Craciun, G. ; Koeppl, H. :
Finding invariant sets for biological systems using monomial domination.
[Online-Edition: http://ieeexplore.ieee.org/xpl/articleDetails.jsp?arnumber=6...]
In: 51st IEEE Conference on Decision and Control (CDC), 2012, 2012. IEEE , Maui, HI, USA
[ Konferenzveröffentlichung] , (2012)

Zechner, C. ; Nandy, P. ; Unger, M. ; Koeppl, H. :
Optimal variational perturbations for the inference of stochastic reaction dynamics.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: 2012 IEEE 51st IEEE Conference on Decision and Control (CDC). IEEE
[ Konferenzveröffentlichung] , (2012)

Petrov, T. ; Feret, J. ; Koeppl, H. :
Reconstructing species-based dynamics from reduced stochastic rule-based models.
[Online-Edition: http://dl.acm.org/citation.cfm?id=2429759.2430062]
In: Proceedings of the 2012 Winter Simulation Conference S. 225.
[Artikel] , (2012)

Klann, M. ; Ganguly, A. ; Koeppl, H. :
Hybrid spatial Gillespie and particle tracking simulation.
[Online-Edition: http://bioinformatics.oxfordjournals.org/content/28/18/i549....]
In: Bioinformatics (Oxford, England), 28 (18) i549.
[Artikel] , (2012)

Koeppl, H. ; Zechner, C. ; Ganguly, A. ; Pelet, S. ; Peter, M. :
Accounting for extrinsic variability in the estimation of stochastic rate constants.
[Online-Edition: http://doi.wiley.com/10.1002/rnc.2804]
In: International Journal of Robust and Nonlinear Control, 22 (10) S. 1103-1119.
[Artikel] , (2012)

Nandy, P. ; Unger, M. ; Zechner, C. ; Koeppl, H. :
Optimal Perturbations for the Identification of Stochastic Reaction Dynamics.
[Online-Edition: http://www.ifac-papersonline.net/Detailed/54661.html]
In: 16th IFAC Symposium on System Identification. Elsevier
[ Konferenzveröffentlichung] , (2012)

Petrov, T. ; Ganguly, A. ; Koeppl, H. :
Model Decomposition and Stochastic Fragments.
[Online-Edition: http://linkinghub.elsevier.com/retrieve/pii/S157106611200019...]
In: Electronic Notes in Theoretical Computer Science, 284 S. 105-124.
[Artikel] , (2012)

Pantea, C. ; Koeppl, H. ; Craciun, G. :
Global injectivity and multiple equilibria in uni- and bi-molecular reaction networks.
[Online-Edition: https://aimsciences.org/journals/displayArticlesnew.jsp?pape...]
In: Discrete and Continuous Dynamical Systems - Series B, 17 (6) S. 2153-2170.
[Artikel] , (2012)

Zechner, C. ; Ruess, J. ; Krenn, P. ; Pelet, S. ; Peter, M. ; Lygeros, J. ; Koeppl, H. :
Moment-based inference predicts bimodality in transient gene expression.
[Online-Edition: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3361437/?tool=pm...]
In: Proceedings of the National Academy of Sciences of the United States of America, 109 (21) S. 8340-8345.
[Artikel] , (2012)

Feret, J. ; Henzinger, T. ; Koeppl, H. ; Petrov, T. :
Lumpability Abstractions of Rule-based Systems.
[Online-Edition: http://linkinghub.elsevier.com/retrieve/pii/S030439751101025...]
In: Journal of Theoretical Comuter Science, 431 S. 137-164.
[Artikel] , (2012)

Hafner, M. ; Koeppl, H. ; Gonze, D. :
Effect of network architecture on synchronization and entrainment properties of the circadian oscillations in the suprachiasmatic nucleus.
[Online-Edition: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3297560/?tool=pm...]
In: PLoS computational biology, 8 (3) e1002419.
[Artikel] , (2012)

Hiroi, N. ; Klann, M. ; Iba, K. ; de Heras Ciechomski, P. ; Yamashita, S. ; Tabira, A. ; Okuhara, T. ; Kubojima, T. ; Okada, Y. ; Oka, K. ; Mange, R. ; Unger, M. ; Funahashi, A. ; Koeppl, H. :
From microscopy data to in silico environments for in vivo-oriented simulations.
[Online-Edition: http://bsb.eurasipjournals.com/CONTENT/2012/1/7]
In: EURASIP Journal on Bioinformatics and Systems Biology, 2012 (1) S. 7.
[Artikel] , (2012)

Klann, M. ; Koeppl, H. ; Reuss, M. :
Spatial modeling of vesicle transport and the cytoskeleton: the challenge of hitting the right road.
[Online-Edition: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjourna...]
In: PloS one, 7 (1) e29645.
[Artikel] , (2012)

Klann, M. ; Koeppl, H. :
Spatial simulations in systems biology: from molecules to cells.
[Online-Edition: http://www.mdpi.com/1422-0067/13/6/7798]
In: International journal of molecular sciences, 13 (6) S. 7798-7827.
[Artikel] , (2012)

Koeppl, H. ; Petrov, T. :
Reductions of stochastic rule-based models: HOG pathway in yeast.
[Online-Edition: http://abstracts.genetics-gsa.org/2012/icsb/book_ICSB_final....]
In: ICSB : The 13th International Conference on Systems Biology.
[ Konferenzveröffentlichung] , (2012)

Klann, M. ; Koeppl, H. :
Spatial stochastic simulation of transcription factor binding reveals mechaniscms to control gene activation.
[Online-Edition: http://www.cs.tut.fi/wcsb12/WCSB2012.pdf]
In: 9th International Workshop on Computational Systems Biology (WCSB 2012). Tampere University of Technology, Tampere International Center for Signal Processing
[ Konferenzveröffentlichung] , (2012)

August, E. ; Lu, J. ; Koeppl, H. :
Trajectory enclosures for systems with uncertainties in initial conditions and parameter values.
[Online-Edition: http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=6314741...]
In: 2012 American Control Conference, 2012, Fairmont Queen Elizabeth, Montreal, Canada. Fairmont Queen Elizabeth, Montreal, Canada
[ Konferenzveröffentlichung] , (2012)

Zechner, C. ; Pelet, S. ; Peter, M. ; Koeppl, H. :
Recursive Bayesian estimation of stochastic rate constants from heterogeneous cell populations.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: IEEE Conference on Decision and Control and European Control Conference S. 5837-5843.
[Artikel] , (2011)

Koeppl, H. ; Hafner, M. ; Ganguly, A. ; Mehrotra, A. :
Deterministic characterization of phase noise in biomolecular oscillators.
[Online-Edition: http://iopscience.iop.org/1478-3975/8/5/055008/fulltext/]
In: Physical biology, 8 (5) S. 55008.
[Artikel] , (2011)

Meyer, P. ; Alexopoulos, L. G. ; Bonk, T. ; Califano, A. ; Cho, C. R. ; de la Fuente, A. ; de Graaf, D. ; Hartemink, A. J. ; Hoeng, J. ; Ivanov, N. V. ; Koeppl, H. ; Linding, R. ; Marbach, D. ; Norel, R. ; Peitsch, M. C. ; Rice, J. J. ; Royyuru, A. ; Schacherer, F. ; Sprengel, J. ; Stolle, K. ; Vitkup, D. ; Stolovitzky, G. :
Verification of systems biology research in the age of collaborative competition.
[Online-Edition: http://www.nature.com/nbt/journal/v29/n9/abs/nbt.1968.html]
In: Nature biotechnology, 29 (9) S. 811-815.
[Artikel] , (2011)

Koeppl, H. ; Petrov, T. :
Stochastic Semantics of Signaling as a Composition of Agent-view Automata.
[Online-Edition: http://linkinghub.elsevier.com/retrieve/pii/S157106611100069...]
In: Electronic Notes in Theoretical Computer Science, 272 S. 3-17.
[Artikel] , (2011)

Lu, J. ; Grass, P. ; Koeppl, H. :
Computational identification of optimal multi target drug intervention strategies for combination theory.
[Online-Edition: http://www.wcsb2011.ethz.ch/programme]
In: Eighth International Workshop on Computational Systems Biology, WCSB 2011, June 6-8, 2011, Zurich, Switzerland. Zurich
[ Konferenzveröffentlichung] , (2011)

August, E. ; Wang, Y. ; Doyle, F. J. ; Lu, J. ; Koeppl, H. :
Computationally implementable sufficient conditions for the synchronisation of coupled dynamical systems with time delays in the coupling.
[Online-Edition: http://ieeexplore.ieee.org/xpls/abs\_all.jsp?arnumber=599073...]
In: Proceedings of the 2011 American Control Conference. IEEE , San Francisco, CA, USA
[ Konferenzveröffentlichung] , (2011)

Danos, V. ; Koeppl, H. ; Wilson-Kanamori, J. :
Cooperative assembly systems.
[Online-Edition: http://link.springer.com/chapter/10.1007/978-3-642-23638-9_1]
In: DNA Computing and Molecular Programming S. 1-21.
[Artikel] , (2011)

Koeppl, H. ; Andreozzi, S. ; Steuer, R. :
Guaranteed and Randomized Methods for Stability Analysis of Uncertain Metabolic Networks.
[Online-Edition: http://link.springer.com/chapter/10.1007/978-3-642-16135-3_2...]
In: Lecture notes in control and information sciences, 407 S. 297-309.
[Artikel] , (2011)

Klann, M. ; Ganguly, A. ; Koeppl, H. :
Improved Reaction Scheme for Spatial Stochastic Simulations with Single Molecule Detail.
[Online-Edition: http://www.wcsb2011.ethz.ch/programme]
In: Eighth International Workshop on Computational Systems Biology (WCSB 2011). Tampere University of Technology , Tampere
[ Konferenzveröffentlichung] , (2011)

Falk, M. ; Ott, M. ; Ertl, T. ; Klann, M. ; Koeppl, H. :
Parallelized Agent-based Simulation on CPU and Graphics Hardware for Spatial and Stochastic Models in Biology Categories and Subject Descriptors.
[Online-Edition: http://dl.acm.org/citation.cfm?doid=2037509.2037521]
CMSB '11 Proceedings of the 9th International Conference on Computational Methods in Systems Biology ACM Press , New York, New York, USA
[ Konferenzveröffentlichung] , (2011)

Unger, M. ; Lee, S.-S. ; Peter, M. ; Koeppl, H. :
Pulse Width Modulation of Liquid Flows.
[Online-Edition: http://e-citations.ethbib.ethz.ch/view/pub:68788]
In: 15th International Conference on Miniaturized Systems for Chemistry and Life Sciences. Chemical and Biological Microsystems Society , San Diego, CA
[ Konferenzveröffentlichung] , (2011)

Hafner, M. ; Lu, J. ; Petrov, T. ; Koeppl, H. :
Rational design of robust biomolecular circuits: From specification to parameters.
[Online-Edition: http://link.springer.com/chapter/10.1007/978-1-4419-6766-4_1...]
In: Analysis and Design of Biomolecular Circuits. Springer, New York, NY , S. 253-281.
[Buchkapitel] , (2011)

Hafner, M. ; Koeppl, H. :
Stochastic Simulations in Systems Biology.
[Online-Edition: http://www.igi-global.com/chapter/handbook-research-computat...]
In: Handbook of Research on Computational Science and Engineering: Theory and Practice. IGI Global , S. 267-286.
[Buchkapitel] , (2011)

Camporesi, F. ; Feret, J. ; Koeppl, H. ; Petrov, T. :
Combining Model Reductions.
[Online-Edition: http://linkinghub.elsevier.com/retrieve/pii/S157106611000085...]
In: Electronic Notes in Theoretical Computer Science, 265 S. 73-96.
[Artikel] , (2010)

Petrov, T. ; Koeppl, H. :
Maximal reduction of deterministic semantics of rule-based models - Google-Suche.
[Online-Edition: https://www.google.de/?gfe\_rd=ctrl\&ei=l3o6U7aXG\_Da8geKzYC...]
In: Proceedings of the International Workshop on computational Systems Biology (WCSB) in 2010.
[ Konferenzveröffentlichung] , (2010)

Koeppl, H. ; Setti, G. ; Pelet, S. ; Mangia, M. ; Petrov, T. ; Peter, M. :
Probability metrics to calibrate stochastic chemical kinetics.
In: Circuits and Systems (ISCAS), Proceedings of 2010 IEEE International Symposium on
[Artikel] , (2010)

Hafner, M. ; Koeppl, H. ; Hasler, M. ; Wagner, A. :
'Glocal' robustness analysis and model discrimination for circadian oscillators.
[Online-Edition: http://journals.plos.org/ploscompbiol/article?id=10.1371/jou...]
In: PLoS Computational Biology, 5 (10) e1000534.
[Artikel] , (2009)

Koeppl, H. ; Setti, G. :
Analysis and design of biological circuits and systems.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: 2009 IEEE International Symposium on Circuits and Systems. IEEE , Taipeh, Taiwan
[ Konferenzveröffentlichung] , (2009)

Rodrigues, A. ; Koeppl, H. ; Ohtsuki, H. ; Satake, A. :
A Game Theoretical Model of deforestation in human-environment relationships.
[Online-Edition: http://www.sciencedirect.com/science/article/pii/S0022519309...]
In: Journal of Theoretical Biology, 258 (1) S. 127-134.
[Artikel] , (2009)

Koeppl, H. :
A Local Nonlinear Model for the Approximation and Identification of a Class of Systems.
[Online-Edition: http://ieeexplore.ieee.org/xpls/icp.jsp?arnumber=4801647]
In: IEEE Transactions on Circuits and Systems II: Express Briefs, 56 (4) S. 315-319.
[Artikel] , (2009)

Parisi, F. ; Koeppl, H. ; Naef, F. :
Network inference by combining biologically motivated regulatory constraints with penalized regression.
[Online-Edition: http://onlinelibrary.wiley.com/doi/10.1111/j.1749-6632.2008....]
In: Annals of the New York Academy of Sciences, 1158 S. 114-124.
[Artikel] , (2009)

Hafner, M. ; Koeppl, H. ; Wagner, A. :
Robustness and evolution in oscillatory systems with feedback loops.
[Online-Edition: http://infoscience.epfl.ch/record/130922?ln=en http://arxiv....]
In: Proc. of the Third IEEE International Conference on Foundations of Systems Biology in Engineering (FOSBE). IEEE , Denver, USA
[ Konferenzveröffentlichung] , (2009)

Koeppl, H. ; Haeusler, S. :
Motifs, algebraic connectivity and computational performance of two data- based cortical circuit templates.
[Online-Edition: http://infoscience.epfl.ch/record/131569?ln=en]
In: Proceedings of the sixth International Workshop on Computational Systems Biology S. 83-86.
[Artikel] , (2009)

Hafner, M. ; Danos, V. ; Koeppl, H. :
Rule-based modeling for protein-protein interaction networks - the Cyanobacterial circadian clock as a case studyproceedings.
[Online-Edition: http://citeseerx.ist.psu.edu/viewdoc/summary;jsessionid=D87D...]
In: Proceedings of the International Workshop on Computational Systems Biology (WCSB). Aarhus, Denmark
[ Konferenzveröffentlichung] , (2009)

Koeppl, H. ; Hafner, M. ; Steuer, R. :
Semi-quantitative stability analysis constrains saturation levels in metabolic networks.
[Online-Edition: http://65.54.113.26/Publication/5234529]
In: Proceedings of the Intenational Workshop on Computational Systems Biology (WCSB). Aarhus, Denmark
[ Konferenzveröffentlichung] , (2009)

Koeppl, H. ; Schumacher, L. ; Danos, V. :
A Statistical analysis of receptor.
In: Proceedings of the International Workshop on Computtional Systmes Biology (WCSB). Aarhus, Denmark
[ Konferenzveröffentlichung] , (2009)

Krall, C. ; Witrisal, K. ; Leus, G. ; Koeppl, H. :
Minimum Mean-Square Error Equalization for Second-Order Volterra Systems.
[Online-Edition: http://ieeexplore.ieee.org/xpls/icp.jsp?arnumber=4558047]
In: IEEE Transactions on Signal Processing, 56 (10) S. 4729-4737.
[Artikel] , (2008)

Murmann, B. ; Vogel, C. ; Koeppl, H. :
Digitally enhanced analog circuits: System aspects.
[Online-Edition: http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=4541479...]
In: 2008 IEEE International Symposium on Circuits and Systems. IEEE
[ Konferenzveröffentlichung] , (2008)

Singerl, P. ; Koeppl, H. :
A Low-rate identification method for digital predistorters based on Volterra kernel interpolation.
[Online-Edition: http://link.springer.com/article/10.1007/s10470-007-9074-4/f...]
In: Analog Integrated Circuits and Signal Processing, 56 (1-2) S. 107-115.
[Artikel] , (2007)

Koeppl, H. :
The Composition Rule for Multivariate Volterra Operators and its Application to Circuit Analysis.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: 2007 IEEE International Symposium on Circuits and Systems. IEEE
[ Konferenzveröffentlichung] , (2007)

Koeppl, H. ; Chua, L. O. :
An Adaptive Cellular Nonlinear Network and its Application.
[Online-Edition: http://ieeexplore.ieee.org/xpls/abs\_all.jsp?arnumber=417672...]
In: Proceedings of the International Symposium on Nonlinear Theory and its Applications (NOLTA), pages 15–18, Sept. 16-19, 2007, Vancouver, Canada.
[Artikel] , (2007)

Huang, C.-H. ; Koeppl, H. :
A Bio-inspired Computer Fovea Model based on hexagonal-type cellular neural networks.
[Online-Edition: http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=4061016]
In: IEEE Transactions on circuits and systems-I : regular papers, 54 (1)
[Artikel] , (2007)

Wolkerstorfer, M. ; Koeppl, H. :
On the Projection Dynamic for Selfish Routing.
[Online-Edition: http://infoscience.epfl.ch/record/112928]
In: European Complex Systems Conference. Dresden, Germany
[ Konferenzveröffentlichung] , (2007)

Koeppl, H. ; Singerl, P. :
An Efficient Scheme for Nonlinear Modeling and Predistortion in Mixed-Signal Systems.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: IEEE Transactions on Circuits and Systems II: Express Briefs, 53 (12) S. 1368-1372.
[Artikel] , (2006)

Koeppl, H. :
An Adaptive Cellular Network for Subspace Extraction.
[Online-Edition: http://ieeexplore.ieee.org/xpls/abs\_all.jsp?arnumber=417672...]
In: 2006 Fortieth Asilomar Conference on Signals, Systems and Computers. IEEE , Pacific Grove, CA, USA
[ Konferenzveröffentlichung] , (2006)

Koeppl, H. :
Information Rate Maximization over a Resistive Grid.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: The 2006 IEEE International Joint Conference on Neural Network Proceedings. IEEE , Vancouver, BC
[ Konferenzveröffentlichung] , (2006)

Singerl, P. ; Koeppl, H. :
A Low-rate identification method for digital predistorters based on Volterra kernel interpolation.
[Online-Edition: http://ieeexplore.ieee.org/xpls/icp.jsp?arnumber=1594406&tag...]
In: Circuits and Systems, 2005. 48th Midwest Symposium, 2 S. 1533-1536.
[Artikel] , (2005)

Schwingshackl, D. ; Koeppl, H. ; Kubin, G. :
Exact discrete-time representation of continuous-time Volterra filters.
[Online-Edition: http://ieeexplore.ieee.org/xpls/abs\_all.jsp?arnumber=150222...]
In: NSIP 2005. Abstracts. IEEE-Eurasip Nonlinear Signal and Image Processing, 2005. S. 11.
[Artikel] , (2005)

Krall, C. ; Witrisal, K. ; Koeppl, H. ; Leus, G. ; Pausini, M. :
Nonlinear equalization for frame-differential IR-UWB receivers.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: 2005 IEEE International Conference on Ultra-Wideband S. 576-581.
[Artikel] , (2005)

Singerl, P. ; Koeppl, H. :
Volterra kernel interpolation for system modeling and predistortion purposes.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: International Symposium on Signals, Circuits and Systems, 2005. ISSCS 2005.. IEEE
[ Konferenzveröffentlichung] , (2005)

Shutin, D. ; Koeppl, H. :
Application of the Evidence Procedure to Linear Problems in Signal Processing.
[Online-Edition: http://adsabs.harvard.edu/abs/2004AIPC..735..161S http://sci...]
In: AIP Conference Proceedings. AIP
[ Konferenzveröffentlichung] , (2004)

Koeppl, H. ; Josan, A. S. ; Paoli, G. ; Kubin, G. :
The Cramer-Rao Bound and DMT Signal Optimisation for the Identification of a Wiener-Type Model.
[Online-Edition: http://asp.eurasipjournals.com/content/2004/12/642938]
In: EURASIP Journal on Applied Signal Processing, 12 S. 1817-1830.
[Artikel] , (2004)

Koeppl, H. ; Schwingshackl, D. :
Comparison of discrete-time approximations for continuous-time nonlinear systems.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: 2004 IEEE International Conference on Acoustics, Speech, and Signal Processing, 2 ii-881.
[Artikel] , (2004)

Koeppl, H. :
Nonlinear System Identification for Mixed Signal Processing | Signal Processing and Speech Communication Laboratory.
[Online-Edition: http://www.spsc.tugraz.at/PhD_Theses/nonlinear-system-identi...]
Graz Universitay of Technology, Graz, Austria
[Dissertation], (2004)

Koeppl, H. ; Kubin, G. ; Paoli, G. :
Bayesian methods for sparse RLS adaptive filters.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: The Thrity-Seventh Asilomar Conference on Signals, Systems & Computers, 2003. IEEE , Pacific Grove, CA, USA
[ Konferenzveröffentlichung] , (2003)

Vogel, C. ; Koeppl, H. :
Behavioral Modeling of Time-Interleaved ADCs using MATLAB.
[Online-Edition: http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.212....]
In: October S. 45-48.
[Artikel] , (2003)

Koeppl, H. ; Paoli, G. ; Kubin, G. :
The Cramer-Rao bound for a factorizable Volterra system.
In: IEEE Workshop on Nonlinear Signal and Image Processing. IEEE , Grado, Italy
[ Konferenzveröffentlichung] , (2003)

Koeppl, H. ; Paoli, G. :
Non-Linear System Identification of a Broadband Subscriber Line Interface Circuitry Using the Volterra Approach.
[Online-Edition: http://ukcatalogue.oup.com/product/9780198507345.do]
In: Mathematics in Signal Processing V, V (Chapter 13)
[Artikel] , (2002)

Koeppl, H. ; Paoli, G. :
Non-linear modeling of a broadband SLIC for ADSL-Lite-over-POTS using harmonic analysis.
[Online-Edition: http://ieeexplore.ieee.org/lpdocs/epic03/wrapper.htm?arnumbe...]
In: 2002 IEEE International Symposium on Circuits and Systems. Proceedings (Cat. No.02CH37353). IEEE , Scottsdale, Arizona, USA
[ Konferenzveröffentlichung] , (2002)

Koeppl, H. :
Identification of a non-linear analog circuitry for an ADSL application.
[Online-Edition: http://search.obvsg.at/primo_library/libweb/action/dlDisplay...]
Karl-Franzens-Universität, Graz, Austria
[Masterarbeit] , (2001)

Paoli, G. ; Koeppl, H. :
Non-linear identification and modeling of large scale analog integrated circuitties for DMT based applications.
[Online-Edition: http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.18.9...]
In: Proc. of the Electronic Circuits and Systems Conference. Bratislava, Slovakia
[ Konferenzveröffentlichung] , (2001)

Koeppl, H. ; Paoli, G.
The Institute of Mathematics and its Applications (IMA) (ed.) :
Non-Linear System Identification of a Broadband Subscriber Line Interface Circuit for ADSL-Lite Using the Volterra Approach.
The Institute of Mathematics and its Applications (IMA) (.) In: 5th IMA International Conference on Mathematics in Signal Processing, Warwick, United Kingdom. In: Proceedings of 5th IMA Conference on Mathematics in Signal Processing
[ Konferenzveröffentlichung] , (2000)