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1

Optimal Kullback–Leibler Aggregation via Information Bottleneck

Geiger, Bernhard C., Petrov, Tatjana, Kubin, Gernot, Koeppl, Heinz

Journal:

IEEE Transactions on Automatic Control

Year:

2015

Language:

english

File:

PDF, 602 KB

english, 2015

2

A low-rate identification method for digital predistorters based on Volterra kernel interpolation

Peter Singerl, Heinz Koeppl

Journal:

Analog Integrated Circuits and Signal Processing

Year:

2008

Language:

english

File:

PDF, 905 KB

english, 2008

3

Design and Analysis of Biomolecular Circuits Volume 393 || Data Model Standardization for Synthetic Biomolecular Circuits and Systems

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 176 KB

english, 2011

4

Design and Analysis of Biomolecular Circuits Volume 8 || Gene Synthesis – Enabling Technologies for Synthetic Biology

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 691 KB

english, 2011

5

Design and Analysis of Biomolecular Circuits Volume 30 || High-Level Programming Languages for Biomolecular Systems

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 1.02 MB

english, 2011

6

An Efficient Scheme for Nonlinear Modeling and Predistortion in Mixed-Signal Systems

Koeppl, Heinz, Singerl, Peter

Journal:

IEEE Transactions on Circuits and Systems II Analog and Digital Signal Processing

Year:

2006

Language:

english

File:

PDF, 226 KB

english, 2006

7

[IEEE 2008 IEEE International Symposium on Circuits and Systems - ISCAS 2008 - Seattle, WA, USA (2008.05.18-2008.05.21)] 2008 IEEE International Symposium on Circuits and Systems - Digitally enhanced analog circuits: System aspects

Murmann, Boris, Vogel, Christian, Koeppl, Heinz

Year:

2008

Language:

english

File:

PDF, 370 KB

english, 2008

8

[IEEE 2009 IEEE International Symposium on Circuits and Systems - ISCAS 2009 - Taipei, Taiwan (2009.05.24-2009.05.27)] 2009 IEEE International Symposium on Circuits and Systems - Analysis and design of biological circuits and systems

Koeppl, Heinz, Setti, Gianluca

Year:

2009

Language:

english

File:

PDF, 858 KB

english, 2009

9

[IEEE 2010 IEEE International Symposium on Circuits and Systems - ISCAS 2010 - Paris, France (2010.05.30-2010.06.2)] Proceedings of 2010 IEEE International Symposium on Circuits and Systems - Probability metrics to calibrate stochastic chemical kinetics

Koeppl, Heinz, Setti, Gianluca, Pelet, Serge, Mangia, Mauro, Petrov, Tatjana, Peter, Matthias

Year:

2010

Language:

english

File:

PDF, 294 KB

english, 2010

10

Verification of systems biology research in the age of collaborative competition

Meyer, Pablo, Alexopoulos, Leonidas G, Bonk, Thomas, Califano, Andrea, Cho, Carolyn R, de la Fuente, Alberto, de Graaf, David, Hartemink, Alexander J, Hoeng, Julia, Ivanov, Nikolai V, Koeppl, Heinz, L

Journal:

Nature Biotechnology

Year:

2011

Language:

english

File:

PDF, 492 KB

english, 2011

11

[IEEE 2007 IEEE International Symposium on Circuits and Systems - New Orleans, LA, USA (2007.05.27-2007.05.30)] 2007 IEEE International Symposium on Circuits and Systems - The Composition Rule for Multivariate Volterra Operators and its Application to Circuit Analysis

Year:

2007

Language:

english

File:

PDF, 239 KB

english, 2007

12

Graph reconstruction using covariance-based methods

Sulaimanov, Nurgazy, Koeppl, Heinz

Journal:

EURASIP Journal on Bioinformatics and Systems Biology

Year:

2016

Language:

english

File:

PDF, 2.04 MB

english, 2016

13

[Lecture Notes in Computer Science] Computational Methods in Systems Biology Volume 10545 || KaDE: A Tool to Compile Kappa Rules into (Reduced) ODE Models

Feret, Jérôme, Koeppl, Heinz

Year:

2017

Language:

english

File:

PDF, 700 KB

english, 2017

14

A variational approach to moment-closure approximations for the kinetics of biomolecular reaction networks

Bronstein, Leo, Koeppl, Heinz

Journal:

The Journal of Chemical Physics

Year:

2018

Language:

english

File:

PDF, 1.70 MB

english, 2018

15

[IEEE 2018 IEEE International Conference on Data Mining (ICDM) - Singapore, Singapore (2018.11.17-2018.11.20)] 2018 IEEE International Conference on Data Mining (ICDM) - Collapsed Variational Inference for Nonparametric Bayesian Group Factor Analysis

Yang, Sikun, Koeppl, Heinz

Year:

2018

Language:

english

File:

PDF, 452 KB

english, 2018

16

Quasi-Steady-State Approximations Derived from the Stochastic Model of Enzyme Kinetics

Kang, Hye-Won, KhudaBukhsh, Wasiur R., Koeppl, Heinz, Rempała, Grzegorz A.

Journal:

Bulletin of Mathematical Biology

Year:

2019

Language:

english

File:

PDF, 1.18 MB

english, 2019

17

Provisioning and Performance Evaluation of Parallel Systems with Output Synchronization

Khudabukhsh, Wasiur R., Kar, Sounak, Rizk, Amr, Koeppl, Heinz

Journal:

ACM Transactions on Modeling and Performance Evaluation of Computing Systems

Year:

2019

Language:

english

File:

PDF, 1.30 MB

english, 2019

18

Combining Model Reductions

Ferdinanda Camporesi, Jérôme Feret, Heinz Koeppl, Tatjana Petrov

Journal:

Electronic Notes in Theoretical Computer Science

Year:

2010

Language:

english

File:

PDF, 566 KB

english, 2010

19

Stochastic Semantics of Signaling as a Composition of Agent-view Automata

Heinz Koeppl, Tatjana Petrov

Journal:

Electronic Notes in Theoretical Computer Science

Year:

2011

Language:

english

File:

PDF, 686 KB

english, 2011

20

A game theoretical model of deforestation in human–environment relationships

António Rodrigues, Heinz Koeppl, Hisashi Ohtsuki, Akiko Satake

Journal:

Journal of Theoretical Biology

Year:

2009

Language:

english

File:

PDF, 251 KB

english, 2009

21

Network Inference by Combining Biologically Motivated Regulatory Constraints with Penalized Regression

Fabio Parisi, Heinz Koeppl, Felix Naef

Journal:

Annals of the New York Academy of Sciences

Year:

2009

Language:

english

File:

PDF, 269 KB

english, 2009

22

Accounting for extrinsic variability in the estimation of stochastic rate constants

Heinz Koeppl, Christoph Zechner, Arnab Ganguly, Serge Pelet, Matthias Peter

Journal:

International Journal of Robust and Nonlinear Control

Year:

2012

Language:

english

File:

PDF, 450 KB

english, 2012

23

Lumpability abstractions of rule-based systems

Jerome Feret, Thomas Henzinger, Heinz Koeppl, Tatjana Petrov

Journal:

Theoretical Computer Science

Year:

2012

Language:

english

File:

PDF, 2.14 MB

english, 2012

24

Design and Analysis of Biomolecular Circuits Volume 244 || Contraction Theory for Systems Biology

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 631 KB

english, 2011

25

Design and Analysis of Biomolecular Circuits Volume 244 || Toward Modularity in Synthetic Biology: Design Patterns and Fan-out

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 880 KB

english, 2011

26

Design and Analysis of Biomolecular Circuits Volume 393 || Modularity, Retroactivity, and Structural Identification

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 333 KB

english, 2011

27

Design and Analysis of Biomolecular Circuits Volume 4 || Graph-Theoretic Analysis of Multistability and Monotonicity for Biochemical Reaction Networks

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 222 KB

english, 2011

28

Design and Analysis of Biomolecular Circuits Volume 30 || Rational Design of Robust Biomolecular Circuits: from Specification to Parameters

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 762 KB

english, 2011

29

Design and Analysis of Biomolecular Circuits Volume 4 || Fluorescent-Based Quantitative Measurements of Signal Transduction in Single Cells

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 706 KB

english, 2011

30

Design and Analysis of Biomolecular Circuits Volume 8 || On the Construction of Minimal Cell Models in Synthetic Biology and Origins of Life Studies

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 817 KB

english, 2011

31

Design and Analysis of Biomolecular Circuits Volume 8 || Computer-Aided Design for Synthetic Biology

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 629 KB

english, 2011

32

Design and Analysis of Biomolecular Circuits Volume 30 || Retroactivity as a Criterion to Define Modules in Signaling Networks

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 438 KB

english, 2011

33

Design and Analysis of Biomolecular Circuits Volume 4 || Stochastic Simulation for Spatial Modelling of Dynamic Processes in a Living Cell

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 344 KB

english, 2011

34

Design and Analysis of Biomolecular Circuits Volume 8 || DNA Assembly Method Standardization for Synthetic Biomolecular Circuits and Systems

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 586 KB

english, 2011

35

Design and Analysis of Biomolecular Circuits Volume 8 || The Impact of Retroactivity on the Behavior of Biomolecular Systems

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 904 KB

english, 2011

36

Design and Analysis of Biomolecular Circuits Volume 30 || || Front_matter

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 93 KB

english, 2011

37

Dynamical properties of Discrete Reaction Networks

Loïc Paulevé, Gheorghe Craciun, Heinz Koeppl

Journal:

Journal of Mathematical Biology

Year:

2014

Language:

english

File:

PDF, 450 KB

english, 2014

38

Inverse problems from biomedicine

James Lu, Elias August, Heinz Koeppl

Journal:

Journal of Mathematical Biology

Year:

2013

Language:

english

File:

PDF, 942 KB

english, 2013

39

Reaction schemes, escape times and geminate recombinations in particle-based spatial simulations of biochemical reactions

Klann, Michael, Koeppl, Heinz

Journal:

Physical Biology

Year:

2013

Language:

english

File:

PDF, 2.45 MB

english, 2013

40

Markov chain aggregation and its applications to combinatorial reaction networks

Ganguly, Arnab, Petrov, Tatjana, Koeppl, Heinz

Journal:

Journal of Mathematical Biology

Year:

2014

Language:

english

File:

PDF, 654 KB

english, 2014

41

Mapping behavioral specifications to model parameters in synthetic biology

Heinz Koeppl,Marc Hafner,James Lu

Journal:

BMC Bioinformatics

Year:

2013

Language:

english

File:

PDF, 791 KB

english, 2013

42

Design and Analysis of Biomolecular Circuits ||

Koeppl, Heinz, Setti, Gianluca, di Bernardo, Mario, Densmore, Douglas

Year:

2011

Language:

english

File:

PDF, 93 KB

english, 2011

43

Model Decomposition and Stochastic Fragments

Petrov, Tatjana, Ganguly, Arnab, Koeppl, Heinz

Journal:

Electronic Notes in Theoretical Computer Science

Year:

2012

Language:

english

File:

PDF, 411 KB

english, 2012

44

[IEEE 2011 American Control Conference - San Francisco, CA (2011.6.29-2011.7.1)] Proceedings of the 2011 American Control Conference - Computationally implementable sufficient conditions for the synchronisation of coupled dynamical systems with time delays in the coupling

August, Elias, Yongqiang Wang,, Doyle, Francis J., Lu, James, Koeppl, Heinz

Year:

2011

Language:

english

File:

PDF, 351 KB

english, 2011

45

Scalable inference of heterogeneous reaction kinetics from pooled single-cell recordings

Zechner, Christoph, Unger, Michael, Pelet, Serge, Peter, Matthias, Koeppl, Heinz

Journal:

Year:

2014

Language:

english

File:

PDF, 1.08 MB

english, 2014

46

[IEEE 2012 Winter Simulation Conference - (WSC 2012) - Berlin, Germany (2012.12.9-2012.12.12)] Proceedings Title: Proceedings of the 2012 Winter Simulation Conference (WSC) - Reconstructing species-based dynamics from reduced stochastic rule-based models

Petrov, Tatjana, Feret, Jerome, Koeppl, Heinz

Year:

2012

Language:

english

File:

PDF, 573 KB

english, 2012

47

[IEEE 2006 Fortieth Asilomar Conference on Signals, Systems and Computers - Pacific Grove, CA, USA (2006.10.29-2006.11.1)] 2006 Fortieth Asilomar Conference on Signals, Systems and Computers - An Adaptive Cellular Network for Subspace Extraction

Year:

2006

Language:

english

File:

PDF, 274 KB

english, 2006

48

Learning diagnostic signatures from microarray data using L1-regularized logistic regression

Nandy, Preetam, Unger, Michael, Zechner, Christoph, Dey, Kushal K, Koeppl, Heinz

Journal:

Systems Biomedicine

Year:

2013

Language:

english

File:

PDF, 1.52 MB

english, 2013

49

Parallel feedback loops control the basal activity of the HOG MAPK signaling cascade

Sharifian, Hoda, Lampert, Fabienne, Stojanovski, Klement, Regot, Sergi, Vaga, Stefania, Buser, Raymond, Lee, Sung Sik, Koeppl, Heinz, Posas, Francesc, Pelet, Serge, Peter, Matthias

Journal:

Integrative Biology

Year:

2015

Language:

english

File:

PDF, 2.61 MB

english, 2015

50

[IEEE 2012 IEEE 51st Annual Conference on Decision and Control (CDC) - Maui, HI, USA (2012.12.10-2012.12.13)] 2012 IEEE 51st IEEE Conference on Decision and Control (CDC) - Finding invariant sets for biological systems using monomial domination

August, Elias, Craciun, Gheorghe, Koeppl, Heinz

Year:

2012

Language:

english

File:

PDF, 212 KB

english, 2012