@article{merten2024threshold,
author = {Merten, Daniel Christopher and Lesne, Annick and Uygun, Yilmaz and Hütt, Marc-Thorsten},
journal = {Frontiers in Industrial Engineering},
pages = {1353531},
publisher = {Frontiers Media SA},
title = {Threshold-impeded stochastic production: how noise interacts with disruptive thresholds to affect the production output in fluctuating environments},
volume = {2},
year = {2024}
}
@article{popova2024perturbation,
author = {Popova, Mariia and Hilgetag, Claus C and Hütt, Marc-Thorsten},
journal = {Physical Review E},
number = {5},
pages = {054406},
publisher = {APS},
title = {Perturbation therapies for neurodegenerative disorders: How attractors of excitable networks can help},
volume = {110},
year = {2024}
}
@article{falk2024nucleation,
author = {Falk, Johannes and Eichler, Edwin and Windt, Katja and Hütt, Marc-Thorsten},
journal = {The European Physical Journal B},
number = {11},
pages = {187},
publisher = {Springer},
title = {Nucleation transitions in polycontextural networks toward consensus},
volume = {97},
year = {2024}
}
@incollection{merten2024novel,
author = {Merten, Daniel and Hütt, Marc-Thorsten and Uygun, Yilmaz and Özgür, Atilla and Klein, Carsten-Andreas},
booktitle = {Steel 4.0: Digitalization in Steel Industry},
pages = {167--187},
publisher = {Springer},
title = {Novel genetic algorithm for simultaneous scheduling of two distinct steel production lines},
year = {2024}
}
@article{mendler2024microbiome,
author = {Mendler, Isabella-Hilda and Drossel, Barbara and Hütt, Marc-Thorsten},
journal = {Physica A: Statistical Mechanics and its Applications},
pages = {129658},
publisher = {Elsevier},
title = {Microbiome abundance patterns as attractors and the implications for the inference of microbial interaction networks},
volume = {639},
year = {2024}
}
@article{lyutov2024machine,
author = {Lyutov, Alexey and Uygun, Yilmaz and Hütt, Marc-Thorsten},
journal = {Scientific Reports},
number = {1},
pages = {21906},
publisher = {Nature Publishing Group UK London},
title = {Machine learning misclassification networks reveal a citation advantage of interdisciplinary publications only in high-impact journals},
volume = {14},
year = {2024}
}
@incollection{merten2024comparative,
author = {Merten, Daniel Christopher and Hütt, Marc-Thorsten and Uygun, Yilmaz and Özgür, Atilla and Klein, Carsten Andreas},
booktitle = {Steel 4.0: digitalization in steel industry},
pages = {125--141},
publisher = {Springer},
title = {Comparative study of two genetic algorithms for steel production planning under different order backlog circumstances},
year = {2024}
}
@article{messe2024binary,
author = {Messé, Arnaud and Hütt, Marc-Thorsten and Hilgetag, Claus C},
journal = {bioRxiv},
pages = {2024--06},
publisher = {Cold Spring Harbor Laboratory},
title = {Binary Brains: How Excitable Dynamics Simplify Neural Connectomes},
year = {2024}
}
@article{Hiesmayr_Hütt_2024,
abstractnote = {<p>A recent trend in mathematical modelling is to publish the computer code together with the research findings. Here we explore the formal question, whether and in which sense a computer implementation is distinct from the mathematical model. We argue that, despite the convenience of implemented models, a set of implicit assumptions is perpetuated with the implementation to the extent that even in widely used models the causal link between the (formal) mathematical model and the set of results is no longer certain. Moreover, code publication is often seen as an important contributor to reproducible research, we suggest that in some cases the opposite may be true. A new perspective on this topic stems from the accelerating trend that in some branches of research only implemented models are used, e.g., in artificial intelligence (AI). With the advent of quantum computers, we argue that completely novel challenges arise in the distinction between models and implementations.</p>},
author = {Hiesmayr, Beatrix C. and Hütt, Marc-Thorsten},
doi = {10.4081/peasa.26},
journal = {Proceedings of the European Academy of Sciences and Arts},
month = {Jun.},
title = {Is a mathematical model equivalent to its computer implementation?},
url = {https://www.peasa.eu/site/article/view/26},
volume = {3},
year = {2024}
}
@article{falk2023topological,
author = {Falk, Johannes and Eichler, Edwin and Windt, Katja and Hütt, Marc-Thorsten},
journal = {arXiv preprint arXiv:2301.10550},
title = {Topological insulators and enhancers in networks under generic problem-solving dynamics},
year = {2023}
}
@article{messe2023purpose,
author = {Messé, Arnaud and Hütt, Marc-Thorsten and Hilgetag, Claus},
title = {The purpose of weights in excitable brain networks},
year = {2023}
}
@article{voutsa2023attractor,
author = {Voutsa, Venetia and Papadopoulos, Michail and Papadopoulou Lesta, Vicky and Hütt, Marc-Thorsten},
journal = {Chaos: An Interdisciplinary Journal of Nonlinear Science},
number = {8},
publisher = {AIP Publishing},
title = {The attractor structure of functional connectivity in coupled logistic maps},
volume = {33},
year = {2023}
}
@article{rumiantsau2023predicting,
author = {Rumiantsau, Dzmitry and Lesne, Annick and Hütt, Marc-Thorsten},
journal = {arXiv preprint arXiv:2301.10370},
title = {Predicting attractors from spectral properties of stylized gene regulatory networks},
year = {2023}
}
@article{mendler2023microbiome,
author = {Mendler, Isabella-Hilda and Drossel, Barbara and Hütt, Marc-Thorsten},
journal = {arXiv preprint arXiv:2306.02100},
title = {Microbiome abundance patterns as attractors and the implications for the inference of microbial interaction networks},
year = {2023}
}
@article{zimmermann2023marine,
author = {Zimmermann, Heike H and Stoof-Leichsenring, Kathleen R and Dinkel, Viktor and Harms, Lars and Schulte, Luise and Hütt, Marc-Thorsten and Nürnberg, Dirk and Tiedemann, Ralf and Herzschuh, Ulrike},
journal = {Nature Communications},
number = {1},
pages = {1650},
publisher = {Nature Publishing Group UK London},
title = {Marine ecosystem shifts with deglacial sea-ice loss inferred from ancient DNA shotgun sequencing},
volume = {14},
year = {2023}
}
@inproceedings{hutt2023machine,
author = {Hütt, Marc and Lyutov, Alexey and Uygun, Yilmaz},
booktitle = {Networks in Science of Science at Network Science Conference},
title = {Machine learning misclassification networks reveal that interdisciplinary publications are rewarded only in high-impact journals},
year = {2023}
}
@article{kosmidis2023dna,
author = {Kosmidis, Kosmas and Hütt, Marc-Thorsten},
journal = {Physica A: Statistical Mechanics and its Applications},
pages = {129043},
publisher = {Elsevier},
title = {DNA visibility graphs},
volume = {626},
year = {2023}
}
@article{schmitt2022reaction,
author = {Schmitt, Oliver and Nitzsche, Christian and Eipert, Peter and Prathapan, Vishnu and Hütt, Marc-Thorsten and Hilgetag, Claus C},
journal = {PLOS Computational Biology},
number = {10},
pages = {e1010507},
publisher = {Public Library of Science San Francisco, CA USA},
title = {Reaction-diffusion models in weighted and directed connectomes},
volume = {18},
year = {2022}
}
@article{hutt2022predictable,
author = {Hütt, Marc-Thorsten and Armbruster, Dieter and Lesne, Annick},
date-modified = {2022-02-19 07:45:12 +0100},
journal = {Physical Review E},
number = {1},
pages = {014304},
publisher = {American Physical Society},
title = {Predictable topological sensitivity of Turing patterns on graphs},
volume = {105},
year = {2022}
}
@techreport{dinkel2022paleometagenomic,
author = {Dinkel, Viktor and Buchwald, Stella Zora and Stoof-Leichsenring, Kathleen and Hütt, Marc-Thorsten and Nürnberg, Dirk and Herzschuh, Ulrike},
institution = {Copernicus Meetings},
title = {Paleometagenomic network analysis of ancient DNA from Bering Sea sediments to examine past ecological communities},
year = {2022}
}
@article{nyczka2022network,
author = {Nyczka, Piotr and Falk, Johannes and Hütt, Marc-Thorsten},
journal = {Scientific Reports},
number = {1},
pages = {19906},
publisher = {Nature Publishing Group UK London},
title = {Network location and clustering of genetic mutations determine chronicity in a stylized model of genetic diseases},
volume = {12},
year = {2022}
}
@article{moreno2022exploring,
author = {Moreno-Zambrano, Mauricio and Ullrich, Matthias S and Hütt, Marc-Thorsten},
journal = {Royal Society Open Science},
publisher = {The Royal Society},
title = {Exploring cocoa bean fermentation mechanisms by kinetic modelling},
year = {2022}
}
@article{merten2022effect,
author = {Merten, Daniel Christopher and Hütt, Marc-Thorsten and Uygun, Yilmaz},
journal = {Journal of Iron and Steel Research International},
pages = {1--9},
publisher = {Springer Singapore},
title = {Effect of slab width on choice of appropriate casting speed in steel production},
year = {2022}
}
@article{jablonski2022contribution,
author = {Jablonski, Kim Philipp and Carron, Leopold and Mozziconacci, Julien and Forné, Thierry and Hütt, Marc-Thorsten and Lesne, Annick},
date-modified = {2022-02-19 07:45:25 +0100},
journal = {Human genomics},
number = {1},
pages = {1--15},
publisher = {BioMed Central},
title = {Contribution of 3D genome topological domains to genetic risk of cancers: a genome-wide computational study},
volume = {16},
year = {2022}
}
@article{kumar2022cocoa,
author = {Kumar, Santhust and D'Souza, Roy N and Corno, Marcello and Ullrich, Matthias S and Kuhnert, Nikolai and Hütt, Marc-Thorsten},
journal = {npj Science of Food},
number = {1},
pages = {1--9},
publisher = {Nature Publishing Group},
title = {Cocoa bean fingerprinting via correlation networks},
volume = {6},
year = {2022}
}
@article{falkCollectivePatternsStable2022,
title = {Collective Patterns and Stable Misunderstandings in Networks Striving for Consensus without a Common Value System},
author = {Falk, Johannes and Eichler, Edwin and Windt, Katja and H{\"u}tt, Marc-Thorsten},
year = {2022},
month = feb,
journal = {Scientific Reports},
volume = {12},
number = {1},
pages = {3028},
publisher = {{Nature Publishing Group}},
issn = {2045-2322},
doi = {10.1038/s41598-022-06880-7}
}
@article{lyutov2021local,
author = {Lyutov, Alexey and Uygun, Yilmaz and Hütt, Marc-Thorsten},
journal = {Applied Network Science},
title = {Local topological features of robust supply networks},
year = {2022}
}
@article{hajaliInferringMissingEdges2022,
abstract = {Many real-life networks are incomplete. Dynamical observations can allow estimating missing edges. Such procedures, often summarized under the term ‘network inference’, typically evaluate the statistical correlations among pairs of nodes to determine connectivity. Here, we offer an alternative approach: completing an incomplete network by observing its collective behavior. We illustrate this approach for the case of patterns emerging in reaction-diffusion systems on graphs, where collective behaviors can be associated with eigenvectors of the network's Laplacian matrix. Our method combines a partial spectral decomposition of the network's Laplacian matrix with eigenvalue assignment by matching the patterns to the eigenvectors of the incomplete graph. We show that knowledge of a few collective patterns can allow the prediction of missing edges and that this result holds across a range of network architectures. We present a numerical case study using activator-inhibitor dynamics and we illustrate that the main requirement for the observed patterns is that they are not confined to subsets of nodes, but involve the whole network.},
author = {Haj Ali, Selim and Hütt, Marc-Thorsten},
doi = {10.1103/PhysRevE.105.064610},
file = {APS Snapshot:/home/johannes/.mozilla/firefox/5ah0aj87.default/zotero/storage/HS5VIBKF/PhysRevE.105.html:text/html;Full Text PDF:/home/johannes/.mozilla/firefox/5ah0aj87.default/zotero/storage/I3PDVLD8/Haj Ali und Hütt - 2022 - Inferring missing edges in a graph from observed c.pdf:application/pdf},
journal = {Physical Review E},
month = {June},
note = {Publisher: American Physical Society},
number = {6},
pages = {064610},
title = {Inferring missing edges in a graph from observed collective patterns},
url = {https://link.aps.org/doi/10.1103/PhysRevE.105.064610},
urldate = {2022-09-09},
volume = {105},
year = {2022}
}
@article{merten2022effect,
author = {Merten, Daniel Christopher and Hütt, Marc-Thorsten and Uygun, Yilmaz},
journal = {Computers & Industrial Engineering},
pages = {108--120},
title = {A network analysis of decision strategies of human experts in steel manufacturing},
year = {2022}
}
@article{voutsa2021two,
author = {Voutsa, Venetia and Battaglia, Demian and Bracken, Louise J and Brovelli, Andrea and Costescu, Julia and Diaz Munoz, Mario and Fath, Brian D and Funk, Andrea and Guirro, Mel and Hein, Thomas and others},
journal = {Journal of the Royal Society Interface},
number = {183},
pages = {20210486},
publisher = {The Royal Society},
title = {Two classes of functional connectivity in dynamical processes in networks},
volume = {18},
year = {2021}
}
@article{cakir2021economy,
author = {Cakir, Eda and Lesne, Annick and Hütt, Marc-Thorsten},
journal = {NPJ systems biology and applications},
number = {1},
pages = {1--9},
publisher = {Nature Publishing Group},
title = {The economy of chromosomal distances in bacterial gene regulation},
volume = {7},
year = {2021}
}
@article{falk2021physics,
author = {Falk, Johannes and Eichler, Edwin and Windt, Katja and Hütt, Marc-Thorsten},
journal = {Foundations of Science},
pages = {1--23},
publisher = {Springer Netherlands},
title = {Physics is Organized Around Transformations Connecting Contextures in a Polycontextural World},
year = {2021}
}
@article{lyutov2021machine,
author = {Lyutov, Alexey and Uygun, Yilmaz and Hütt, Marc-Thorsten},
journal = {Scientometrics},
number = {2},
pages = {1173--1186},
publisher = {Springer International Publishing},
title = {Machine learning misclassification of academic publications reveals non-trivial interdependencies of scientific disciplines},
volume = {126},
year = {2021}
}
@article{nyczka2021inferring,
author = {Nyczka, Piotr and Hütt, Marc-Thorsten and Lesne, Annick},
journal = {Physica A: Statistical Mechanics and its Applications},
pages = {125631},
publisher = {North-Holland},
title = {Inferring pattern generators on networks},
volume = {566},
year = {2021}
}
@article{kumar2021cocoa,
author = {Kumar, Santhust and D'Souza, Roy N and Behrends, Britta and Corno, Marcello and Ullrich, Matthias S and Kuhnert, Nikolai and Hütt, Marc-Thorsten},
date-modified = {2022-02-19 07:46:02 +0100},
journal = {Food Research International},
pages = {109983},
publisher = {Elsevier},
title = {Cocoa origin classifiability through LC-MS data: A statistical approach for large and long-term datasets},
volume = {140},
year = {2021}
}
@article{ozgur2021review,
author = {Özgür, Atilla and Uygun, Yilmaz and Hütt, Marc-Thorsten},
journal = {Computers & Industrial Engineering},
pages = {106606},
publisher = {Pergamon},
title = {A review of planning and scheduling methods for hot rolling mills in steel production},
volume = {151},
year = {2021}
}
@article{kosmidis2021minimal,
author = {Kosmidis, Kosmas and Hütt, Marc-Thorsten},
journal = {Scientific reports},
number = {1},
pages = {1--12},
publisher = {Nature Publishing Group},
title = {A minimal model for gene expression dynamics of bacterial type II toxin--antitoxin systems},
volume = {11},
year = {2021}
}
@article{perrin2021hexokinase,
author = {Perrin-Cocon, Laure and Vidalain, Pierre-Olivier and Jacquemin, Clémence and Aublin-Gex, Anne and Olmstead, Keedrian and Panthu, Baptiste and Rautureau, Gilles Jeans Philippe and André, Patrice and Nyczka, Piotr and Hütt, Marc-Thorsten and others},
journal = {Communications biology},
number = {1},
pages = {1--15},
publisher = {Nature Publishing Group},
title = {A hexokinase isoenzyme switch in human liver cancer cells promotes lipogenesis and enhances innate immunity},
volume = {4},
year = {2021}
}
@incollection{hutt2020unravelling,
author = {Hütt, Marc-Thorsten and Lesne, Annick},
booktitle = {Discrete and Continuous Models in the Theory of Networks},
pages = {179--198},
publisher = {Birkhäuser, Cham},
title = {Unravelling topological determinants of excitable dynamics on graphs using analytical mean-field approaches},
year = {2020}
}
@incollection{hutt2020selbstorganisation,
author = {Hütt, Marc-Thorsten},
booktitle = {Selbstorganisation--ein Paradigma für die Humanwissenschaften},
date-modified = {2022-02-19 07:46:39 +0100},
pages = {197--213},
publisher = {Springer, Wiesbaden},
title = {Selbstorganisation in Netzwerken -- von den Neurowissenschaften zur Systembiologie},
year = {2020}
}
@article{viol2020multi,
author = {Viol, Kathrin and Schiepek, Günter and Kronbichler, Martin and Hartl, Arnulf and Grafetstätter, Carina and Strasser, Peter and Kastinger, Anna and Schöller, Helmut and Reiter, Eva-Maria and Said-Yürekli, Sarah and others},
date-modified = {2022-02-19 07:47:11 +0100},
journal = {BMC psychiatry},
number = {1},
pages = {1--12},
publisher = {BioMed Central},
title = {Multi-level assessment of obsessive-compulsive disorder (OCD) reveals relations between neural and neurochemical levels},
volume = {20},
year = {2020}
}
@article{perrin2020lipogenesis,
author = {Perrin-Cocon, Laure and Vidalain, Pierre-Olivier and Jacquemin, Clémence and Aublin-Gex, Anne and Olmstead, Keedrian and Panthu, Baptiste and Rautureau, Gilles JP and André, Patrice and Nyczka, Piotr and Hütt, Marc-Thorsten and others},
journal = {bioRxiv},
publisher = {Cold Spring Harbor Laboratory},
title = {Lipogenesis and innate immunity in hepatocellular carcinoma cells reprogrammed by an isoenzyme switch of hexokinases},
year = {2020}
}
@article{moretti2020link,
author = {Moretti, Paolo and Hütt, Marc-Thorsten},
journal = {Proceedings of the National Academy of Sciences},
number = {31},
pages = {18332--18340},
publisher = {National Academy of Sciences},
title = {Link-usage asymmetry and collective patterns emerging from rich-club organization of complex networks},
volume = {117},
year = {2020}
}
@article{hutt2020grundlagen,
author = {Hütt, Marc-Thorsten},
journal = {Philosophisches Handbuch Künstliche Intelligenz},
pages = {1--21},
publisher = {Springer Fachmedien Wiesbaden},
title = {Grundlagen konnektiver komplexer Systeme},
year = {2020}
}
@article{nyczka2020generative,
author = {Nyczka, Piotr and Hütt, Marc-Thorsten},
journal = {Physical Review Research},
number = {3},
pages = {033130},
publisher = {American Physical Society},
title = {Generative network model of transcriptome patterns in disease cohorts with tunable signal strength},
volume = {2},
year = {2020}
}
@misc{hutt2020gene,
author = {Hütt, Marc-Thorsten and Lesne, Annick},
publisher = {Elsevier},
title = {Gene regulatory network.},
year = {2020}
}
@article{hutt2020fairness,
author = {Hütt, Marc-Thorsten and Schubert, Claudia},
journal = {Philosophisches Handbuch Künstliche Intelligenz},
pages = {1--22},
publisher = {Springer Fachmedien Wiesbaden},
title = {Fairness von KI-Algorithmen},
year = {2020}
}
@article{kosmidis2020chromosomal,
author = {Kosmidis, Kosmas and Jablonski, Kim Philipp and Muskhelishvili, Georgi and Hütt, Marc-Thorsten},
journal = {NPJ systems biology and applications},
number = {1},
pages = {1--9},
publisher = {Nature Publishing Group},
title = {Chromosomal origin of replication coordinates logically distinct types of bacterial genetic regulation},
volume = {6},
year = {2020}
}
@inproceedings{ngo2019visual,
author = {Ngo, Quynh Quang and Hütt, Marc-Thorsten and Linsen, Lars},
booktitle = {VMV},
pages = {89--97},
title = {Visual Analytics of Simulation Ensembles for Network Dynamics.},
year = {2019}
}
@article{damicelli2019topological,
author = {Damicelli, Fabrizio and Hilgetag, Claus C and Hütt, Marc-Thorsten and Messé, Arnaud},
journal = {Network Neuroscience},
number = {2},
pages = {589--605},
publisher = {MIT Press One Rogers Street, Cambridge, MA 02142-1209, USA journals-info~łdots},
title = {Topological reinforcement as a principle of modularity emergence in brain networks},
volume = {3},
year = {2019}
}
@article{schlicht2019metabolic,
author = {Schlicht, Kristina and Nyczka, Piotr and Caliebe, Amke and Freitag-Wolf, Sandra and Claringbould, Annique and Franke, Lude and Võsa, Urmo and Kardia, Sharon LR and Smith, Jennifer A and Zhao, Wei and others},
journal = {Human genetics},
number = {4},
pages = {375--388},
publisher = {Springer Berlin Heidelberg},
title = {The metabolic network coherence of human transcriptomes is associated with genetic variation at the cadherin 18 locus},
volume = {138},
year = {2019}
}
@article{kosmidis2019coli,
author = {Kosmidis, Kosmas and Hütt, Marc-Thorsten},
date-modified = {2022-02-19 07:47:23 +0100},
journal = {The European Physical Journal E},
number = {3},
pages = {1--9},
publisher = {Springer Berlin Heidelberg},
title = {The E. coli transcriptional regulatory network and its spatial embedding},
volume = {42},
year = {2019}
}
@incollection{hutt2019modular,
author = {Hütt, Marc-Thorsten},
booktitle = {Emergence and modularity in life sciences},
pages = {37--49},
publisher = {Springer, Cham},
title = {Modular organization and emergence in systems biology},
year = {2019}
}
@article{lyutov2019managing,
author = {Lyutov, Alexey and Uygun, Yilmaz and Hütt, Marc-Thorsten},
journal = {Computers in Industry},
pages = {215--225},
publisher = {Elsevier},
title = {Managing workflow of customer requirements using machine learning},
volume = {109},
year = {2019}
}
@article{schubert2019economy,
author = {Schubert, Claudia and Hütt, Marc-Thorsten},
journal = {European Labour Law Journal},
number = {1},
pages = {3--16},
publisher = {SAGE Publications Sage UK: London, England},
title = {Economy-on-demand and the fairness of algorithms},
volume = {10},
year = {2019}
}
@inproceedings{bendul2019improved,
author = {Bendul, Julia and Vican, Victor and Hütt, Marc-Thorsten},
booktitle = {International Workshop on Service Orientation in Holonic and Multi-Agent Manufacturing},
organization = {Springer, Cham},
pages = {232--243},
title = {An improved production planning approach under the consideration of production order interdependencies},
year = {2019}
}
@article{grimbs2019system,
author = {Grimbs, Anne and Klosik, David F and Bornholdt, Stefan and Hütt, Marc-Thorsten},
journal = {PLoS computational biology},
number = {5},
pages = {e1006962},
publisher = {Public Library of Science},
title = {A system-wide network reconstruction of gene regulation and metabolism in Escherichia coli},
volume = {15},
year = {2019}
}
@article{scholler2019nonlinear,
author = {Schöller, Helmut and Viol, Kathrin and Goditsch, Hannes and Aichhorn, Wolfgang and Hütt, Marc-Thorsten and Schiepek, Günter},
journal = {Nonlinear Dynamics, Psychology, and Life Sciences},
publisher = {Society for Chaos Theory in Psychology & Life Sciences},
title = {A nonlinear dynamic systems model of psychotherapy: First steps toward validation and the role of external input.},
year = {2019}
}
@article{chankov2018understanding,
author = {Chankov, Stanislav and Hütt, Marc-Thorsten and Bendul, Julia},
journal = {Journal of manufacturing systems},
pages = {127--136},
publisher = {Elsevier},
title = {Understanding synchronizability of manufacturing networks: A multi-method study on structural network properties},
volume = {46},
year = {2018}
}
@article{messe2018toward,
author = {Messé, Arnaud and Hütt, Marc-Thorsten and Hilgetag, Claus C},
journal = {PLoS computational biology},
number = {4},
pages = {e1006084},
publisher = {Public Library of Science},
title = {Toward a theory of coactivation patterns in excitable neural networks},
volume = {14},
year = {2018}
}
@article{blunck2018balance,
author = {Blunck, Henning and Armbruster, Dieter and Bendul, Julia and Hütt, Marc-Thorsten},
journal = {Applied Network Science},
number = {1},
pages = {1--19},
publisher = {SpringerOpen},
title = {The balance of autonomous and centralized control in scheduling problems},
volume = {3},
year = {2018}
}
@article{scholler2018personality,
author = {Schöller, Helmut and Viol, Kathrin and Aichhorn, Wolfgang and Hütt, Marc-Thorsten and Schiepek, Günter},
journal = {Cognitive Neurodynamics},
number = {5},
pages = {441--459},
publisher = {Springer Netherlands},
title = {Personality development in psychotherapy: a synergetic model of state-trait dynamics},
volume = {12},
year = {2018}
}
@article{chankov2018influencing,
author = {Chankov, Stanislav and Hütt, Marc-Thorsten and Bendul, Julia},
journal = {International Journal of Production Research},
number = {14},
pages = {4781--4801},
publisher = {Taylor & Francis},
title = {Influencing factors of synchronization in manufacturing systems},
volume = {56},
year = {2018}
}
@article{enders2018drawing,
author = {Enders, Martin and Hütt, Marc-Thorsten and Jeschke, Jonathan M},
journal = {Ecosphere},
number = {3},
pages = {e02146},
title = {Drawing a map of invasion biology based on a network of hypotheses},
volume = {9},
year = {2018}
}
@article{turnbull2018connectivity,
author = {Turnbull, Laura and Hütt, Marc-Thorsten and Ioannides, Andreas A and Kininmonth, Stuart and Poeppl, Ronald and Tockner, Klement and Bracken, Louise J and Keesstra, Saskia and Liu, Lichan and Masselink, Rens and others},
journal = {Applied Network Science},
number = {1},
pages = {1--49},
publisher = {SpringerOpen},
title = {Connectivity and complex systems: learning from a multi-disciplinary perspective},
volume = {3},
year = {2018}
}
@article{moreno2018mathematical,
author = {Moreno-Zambrano, Mauricio and Grimbs, Sergio and Ullrich, Matthias S and Hütt, Marc-Thorsten},
journal = {Royal Society open science},
number = {10},
pages = {180964},
publisher = {The Royal Society},
title = {A mathematical model of cocoa bean fermentation},
volume = {5},
year = {2018}
}
@article{hasler2017uncoupling,
author = {Häsler, Robert and Sheibani-Tezerji, Raheleh and Sinha, Anupam and Barann, Matthias and Rehman, Ateequr and Esser, Daniela and Aden, Konrad and Knecht, Carolin and Brandt, Berenice and Nikolaus, Susanna and others},
journal = {Gut},
number = {12},
pages = {2087--2097},
publisher = {BMJ Publishing Group},
title = {Uncoupling of mucosal gene regulation, mRNA splicing and adherent microbiota signatures in inflammatory bowel disease},
volume = {66},
year = {2017}
}
@article{fretter2017topological,
author = {Fretter, Christoph and Lesne, Annick and Hilgetag, Claus C and Hütt, Marc-Thorsten},
journal = {Scientific reports},
number = {1},
pages = {1--11},
publisher = {Nature Publishing Group},
title = {Topological determinants of self-sustained activity in a simple model of excitable dynamics on graphs},
volume = {7},
year = {2017}
}
@article{klosik2017interdependent,
author = {Klosik, David F and Grimbs, Anne and Bornholdt, Stefan and Hütt, Marc-Thorsten},
journal = {Nature communications},
number = {1},
pages = {1--9},
publisher = {Nature Publishing Group},
title = {The interdependent network of gene regulation and metabolism is robust where it needs to be},
volume = {8},
year = {2017}
}
@article{schiepek2017psychotherapy,
author = {Schiepek, Günter K and Viol, Kathrin and Aichhorn, Wolfgang and Hütt, Marc-Thorsten and Sungler, Katharina and Pincus, David and Schöller, Helmut J},
journal = {Frontiers in Psychology},
pages = {379},
publisher = {Frontiers},
title = {Psychotherapy is chaotic---(not only) in a computational world},
volume = {8},
year = {2017}
}
@article{damicelli2017modular,
author = {Damicelli, Fabrizio and Hilgetag, Claus C and Hütt, Marc-Thorsten and Messé, Arnaud},
journal = {Chaos: An Interdisciplinary Journal of Nonlinear Science},
number = {4},
pages = {047406},
publisher = {AIP Publishing LLC},
title = {Modular topology emerges from plasticity in a minimalistic excitable network model},
volume = {27},
year = {2017}
}
@article{bauer2017interdisciplinary,
author = {Bauer, Christian R and Knecht, Carolin and Fretter, Christoph and Baum, Benjamin and Jendrossek, Sandra and Rühlemann, Malte and Heinsen, Femke-Anouska and Umbach, Nadine and Grimbacher, Bodo and Franke, Andre and others},
journal = {Briefings in bioinformatics},
number = {3},
pages = {479--487},
publisher = {Oxford University Press},
title = {Interdisciplinary approach towards a systems medicine toolbox using the example of inflammatory diseases},
volume = {18},
year = {2017}
}
@inproceedings{jablonski2017genome,
author = {Jablonski, Kim Philipp and Fretter, Christoph and Carron, Leopold and Forné, Thierry and Hütt, M-T and Lesne, Annick},
booktitle = {AIP Conference Proceedings},
number = {1},
organization = {AIP Publishing LLC},
pages = {020027},
title = {Genome supranucleosomal organization and genetic susceptibility to diseases},
volume = {1882},
year = {2017}
}
@article{claussen2017boolean,
author = {Claussen, Jens Christian and Skiecevičienė, Jurgita and Wang, Jun and Rausch, Philipp and Karlsen, Tom H and Lieb, Wolfgang and Baines, John F and Franke, Andre and Hütt, Marc-Thorsten},
journal = {PLoS computational biology},
number = {6},
pages = {e1005361},
publisher = {Public Library of Science San Francisco, CA USA},
title = {Boolean analysis reveals systematic interactions among low-abundance species in the human gut microbiome},
volume = {13},
year = {2017}
}
@article{grimbs2017bioactivity,
author = {Grimbs, Anne and Shrestha, Abhinandan and Rezk, Ahmed SD and Grimbs, Sergio and Hakeem Said, Inamullah and Schepker, Hartwig and Hütt, Marc-Thorsten and Albach, Dirk C and Brix, Klaudia and Kuhnert, Nikolai and others},
journal = {Frontiers in plant science},
pages = {551},
publisher = {Frontiers},
title = {Bioactivity in Rhododendron: A systemic analysis of antimicrobial and cytotoxic activities and their phylogenetic and phytochemical origins},
volume = {8},
year = {2017}
}
@inproceedings{ngo2016visual,
author = {Ngo, Quynh Quang and Hütt, Marc-Thorsten and Linsen, Lars},
booktitle = {Computer Graphics Forum},
number = {3},
pages = {301--310},
title = {Visual analysis of governing topological structures in excitable network dynamics},
volume = {35},
year = {2016}
}
@article{radde2016physics,
author = {Radde, Nicole E and Hütt, Marc-Thorsten},
journal = {EPJ Nonlinear Biomedical Physics},
number = {1},
pages = {7},
publisher = {Springer Berlin Heidelberg},
title = {The physics behind systems biology},
volume = {4},
year = {2016}
}
@article{meyer2016elementary,
author = {Meyer, Mirja and Hütt, Marc-Thorsten and Bendul, Julia},
journal = {International Journal of Production Research},
number = {14},
pages = {4145--4160},
publisher = {Taylor & Francis},
title = {The elementary flux modes of a manufacturing system: a novel approach to explore the relationship of network structure and function},
volume = {54},
year = {2016}
}
@article{chankov2016synchronization,
author = {Chankov, Stanislav and Hütt, Marc-Thorsten and Bendul, Julia},
journal = {International Journal of Production Research},
number = {20},
pages = {6033--6051},
publisher = {Taylor & Francis},
title = {Synchronization in manufacturing systems: quantification and relation to logistics performance},
volume = {54},
year = {2016}
}
@article{beber2016interplay,
author = {Beber, Moritz E and Sobetzko, Patrick and Muskhelishvili, Georgi and Hütt, Marc-Thorsten},
journal = {EPJ Nonlinear Biomedical Physics},
number = {1},
pages = {8},
publisher = {Springer Berlin Heidelberg},
title = {Interplay of digital and analog control in time-resolved gene expression profiles},
volume = {4},
year = {2016}
}
@article{beber2016effect,
author = {Beber, Moritz E and Muskhelishvili, Georgi and Hütt, Marc-Thorsten},
date-modified = {2022-02-19 07:49:19 +0100},
journal = {Database},
publisher = {Oxford Academic},
title = {Effect of database drift on network topology and enrichment analyses: a case study for RegulonDB},
volume = {2016},
year = {2016}
}
@article{knecht2016distinct,
author = {Knecht, Carolin and Fretter, Christoph and Rosenstiel, Philip and Krawczak, Michael and Hütt, Marc-Thorsten},
journal = {Scientific reports},
number = {1},
pages = {1--11},
publisher = {Nature Publishing Group},
title = {Distinct metabolic network states manifest in the gene expression profiles of pediatric inflammatory bowel disease patients and controls},
volume = {6},
year = {2016}
}
@article{grace2015regulation,
author = {Grace, Miriam and Hütt, Marc-Thorsten},
journal = {PLoS computational biology},
number = {11},
pages = {e1004367},
publisher = {Public Library of Science San Francisco, CA USA},
title = {Regulation of spatiotemporal patterns by biological variability: General principles and applications to Dictyostelium discoideum},
volume = {11},
year = {2015}
}
@incollection{hutt2015noise,
author = {Hütt, Marc-Thorsten and Lüttge, Ulrich and Thellier, Michel},
booktitle = {Rhythms in plants},
pages = {279--321},
publisher = {Springer, Cham},
title = {Noise-induced phenomena and complex rhythms: a test scenario for plant systems biology},
year = {2015}
}
@article{hao2015node,
author = {Hao, Yan and Armbruster, Dieter and Hütt, Marc-Thorsten},
journal = {PloS one},
number = {5},
pages = {e0125467},
publisher = {Public Library of Science San Francisco, CA USA},
title = {Node survival in networks under correlated attacks},
volume = {10},
year = {2015}
}
@article{kosmidis2015network,
author = {Kosmidis, Kosmas and Beber, Moritz and Hütt, Marc-Thorsten},
journal = {Advances in Complex Systems},
number = {01n02},
pages = {1550007},
publisher = {World Scientific Publishing Company},
title = {Network heterogeneity and node capacity lead to heterogeneous scaling of fluctuations in random walks on graphs},
volume = {18},
year = {2015}
}
@misc{hutt2015methoden,
author = {Hütt, Marc-Thorsten and Dehnert, Manuel},
date-modified = {2022-02-19 07:49:52 +0100},
publisher = {Springer-Verlag},
title = {Methoden der Bioinformatik: eine Einführung zur Anwendung in Biologie und Medizin},
year = {2015}
}
@article{messe2015closer,
author = {Messé, Arnaud and Hütt, Marc-Thorsten and König, Peter and Hilgetag, Claus C},
journal = {Scientific reports},
number = {1},
pages = {1--5},
publisher = {Nature Publishing Group},
title = {A closer look at the apparent correlation of structural and functional connectivity in excitable neural networks},
volume = {5},
year = {2015}
}
@article{hutt2014understanding,
author = {Hütt, Marc-Thorsten},
journal = {British journal of clinical pharmacology},
number = {4},
pages = {597--605},
title = {Understanding genetic variation--the value of systems biology},
volume = {77},
year = {2014}
}
@article{garcia2014role,
author = {Garcia, Guadalupe C and Lesne, Annick and Hilgetag, Claus C and Hütt, Marc-Thorsten},
journal = {Physical Review E},
number = {5},
pages = {052805},
publisher = {American Physical Society},
title = {Role of long cycles in excitable dynamics on graphs},
volume = {90},
year = {2014}
}
@article{hutt2014perspective,
author = {Hütt, Marc-Thorsten and Kaiser, Marcus and Hilgetag, Claus C},
journal = {Philosophical Transactions of the Royal Society B: Biological Sciences},
number = {1653},
pages = {20130522},
publisher = {The Royal Society},
title = {Perspective: network-guided pattern formation of neural dynamics},
volume = {369},
year = {2014}
}
@article{grace2014pattern,
author = {Grace, Miriam and Hütt, Marc-Thorsten},
journal = {The European Physical Journal B},
number = {2},
pages = {1--9},
publisher = {Springer Berlin Heidelberg},
title = {Pattern competition as a driver of diversity-induced resonance},
volume = {87},
year = {2014}
}
@article{klosik2014motif,
author = {Klosik, David F and Bornholdt, Stefan and Hütt, Marc-Thorsten},
journal = {Physical Review E},
number = {3},
pages = {032811},
publisher = {American Physical Society},
title = {Motif-based success scores in coauthorship networks are highly sensitive to author name disambiguation},
volume = {90},
year = {2014}
}
@article{hilgetag2014hierarchical,
author = {Hilgetag, Claus C and Hütt, Marc-Thorsten},
journal = {Trends in cognitive sciences},
number = {3},
pages = {114--115},
publisher = {Elsevier Current Trends},
title = {Hierarchical modular brain connectivity is a stretch for criticality},
volume = {18},
year = {2014}
}
@article{moller2014genome,
author = {Möller, Simon and Hameister, Heike and Hütt, Marc-Thorsten},
journal = {Physica A: Statistical Mechanics and its Applications},
pages = {216--226},
publisher = {North-Holland},
title = {A genome signature derived from the interplay of word frequencies and symbol correlations},
volume = {414},
year = {2014}
}
@article{beber2013prescribed,
author = {Beber, Moritz Emanuel and Armbruster, Dieter and Hütt, Marc-Thorsten},
journal = {The European Physical Journal B},
number = {11},
pages = {1--9},
publisher = {Springer Berlin Heidelberg},
title = {The prescribed output pattern regulates the modular structure of flow networks},
volume = {86},
year = {2013}
}
@article{grace2013predictability,
author = {Grace, Miriam and Hütt, Marc-Thorsten},
journal = {Journal of The Royal Society Interface},
number = {81},
pages = {20121016},
publisher = {The Royal Society},
title = {Predictability of spatio-temporal patterns in a lattice of coupled FitzHugh--Nagumo oscillators},
volume = {10},
year = {2013}
}
@incollection{hilgetag2013model,
author = {Hilgetag, Claus C and Hütt, Marc-Thorsten and Zhou, Changsong},
booktitle = {Advances in Cognitive Neurodynamics (III)},
pages = {77--81},
publisher = {Springer, Dordrecht},
title = {Model Complexity in the Study of Neural Network Phenomena},
year = {2013}
}
@incollection{beber2013production,
author = {Beber, Moritz Emanuel and Hütt, Marc-Thorsten},
booktitle = {Robust Manufacturing Control},
pages = {3--16},
publisher = {Springer, Berlin, Heidelberg},
title = {How do production systems in biological cells maintain their function in changing environments?},
year = {2013}
}
@misc{hutt2013datenanalyse,
author = {Hütt, Marc-Thorsten},
publisher = {Springer-Verlag},
title = {Datenanalyse in der Biologie: eine Einführung in Methoden der nichtlinearen Dynamik, fraktalen Geometrie und Informationstheorie},
year = {2013}
}
@incollection{becker2013comparison,
author = {Becker, Till and Meyer, Mirja and Beber, Moritz E and Windt, Katja and Hütt, Marc-Thorsten},
booktitle = {Dynamics in Logistics},
pages = {141--150},
publisher = {Springer, Berlin, Heidelberg},
title = {A comparison of network characteristics in metabolic and manufacturing systems},
year = {2013}
}
@article{becker2012impact,
author = {Becker, Till and Beber, Moritz Emanuel and Windt, Katja and Hütt, Marc-Thorsten},
journal = {CIRP Journal of Manufacturing Science and Technology},
number = {4},
pages = {309--318},
publisher = {Elsevier},
title = {The impact of network connectivity on performance in production logistic networks},
volume = {5},
year = {2012}
}
@article{fretter2012subgraph,
author = {Fretter, Christoph and Müller-Hannemann, Matthias and Hütt, Marc-Thorsten},
journal = {Physical Review E},
number = {5},
pages = {056119},
publisher = {APS},
title = {Subgraph fluctuations in random graphs},
volume = {85},
year = {2012}
}
@article{hutt2012stochastic,
author = {Hütt, Marc-Thorsten and Jain, Mitul K and Hilgetag, Claus C and Lesne, Annick},
journal = {Chaos, Solitons & Fractals},
number = {5},
pages = {611--618},
publisher = {Pergamon},
title = {Stochastic resonance in discrete excitable dynamics on graphs},
volume = {45},
year = {2012}
}
@inproceedings{toosi2012projection,
author = {Toosi, Farshad Ghassemi and Paulovich, Fernando Vieira and Hütt, Marc-Thorsten and Linsen, Lars},
booktitle = {EuroVis (Short Papers)},
title = {Projection-based Visualization of Dynamical Processes on Networks.},
year = {2012}
}
@article{marr2012cellular,
author = {Marr, Carsten and Hütt, Marc-Thorsten},
journal = {Entropy},
number = {6},
pages = {993--1010},
publisher = {Molecular Diversity Preservation International},
title = {Cellular automata on graphs: Topological properties of ER graphs evolved towards low-entropy dynamics},
volume = {14},
year = {2012}
}
@article{garcia2012building,
author = {Garcia, Guadalupe Clara and Lesne, Annick and Hütt, Marc-Thorsten and Hilgetag, Claus C},
journal = {Frontiers in computational neuroscience},
pages = {50},
publisher = {Frontiers},
title = {Building blocks of self-sustained activity in a simple deterministic model of excitable neural networks},
volume = {6},
year = {2012}
}
@article{beber2012artefacts,
author = {Beber, Moritz Emanuel and Fretter, Christoph and Jain, Shubham and Sonnenschein, Nikolaus and Müller-Hannemann, Matthias and Hütt, Marc-Thorsten},
journal = {Journal of the Royal Society Interface},
number = {77},
pages = {3426--3435},
publisher = {The Royal Society},
title = {Artefacts in statistical analyses of network motifs: general framework and application to metabolic networks},
volume = {9},
year = {2012}
}
@article{sonnenschein2012topological,
author = {Sonnenschein, Nikolaus and Marr, Carsten and Hütt, Marc-Thorsten},
journal = {Metabolites},
number = {3},
pages = {632--647},
publisher = {Molecular Diversity Preservation International},
title = {A topological characterization of medium-dependent essential metabolic reactions},
volume = {2},
year = {2012}
}
@article{sonnenschein2012network,
author = {Sonnenschein, Nikolaus and Golib Dzib, José Felipe and Lesne, Annick and Eilebrecht, Sebastian and Boulkroun, Sheerazed and Zennaro, Maria-Christina and Benecke, Arndt and Hütt, Marc-Thorsten},
journal = {BMC systems biology},
number = {1},
pages = {1--13},
publisher = {BioMed Central},
title = {A network perspective on metabolic inconsistency},
volume = {6},
year = {2012}
}
@incollection{windt2012modeling,
author = {Windt, K and Hütt, M-T and Meyer, M},
booktitle = {Enabling Manufacturing Competitiveness and Economic Sustainability},
pages = {493--498},
publisher = {Springer, Berlin, Heidelberg},
title = {A modeling approach to analyze redundancy in manufacturing systems},
year = {2012}
}
@article{krumov2011motifs,
author = {Krumov, Lachezar and Fretter, Christoph and Müller-Hannemann, Matthias and Weihe, Karsten and Hütt, M-T},
journal = {The European Physical Journal B},
number = {4},
pages = {535--540},
publisher = {Springer-Verlag},
title = {Motifs in co-authorship networks and their relation to the impact of scientific publications},
volume = {84},
year = {2011}
}
@article{becker2011flow,
author = {Becker, Till and Beber, Moritz E and Windt, Katja and Hütt, Marc-Thorsten and Helbing, Dirk},
journal = {Journal of Statistical Mechanics: Theory and Experiment},
number = {05},
pages = {P05004},
publisher = {IOP Publishing},
title = {Flow control by periodic devices: a unifying language for the description of traffic, production, and metabolic systems},
volume = {2011},
year = {2011}
}
@article{windt2011exploring,
author = {Windt, Katja and Hütt, Marc-Thorsten},
journal = {CIRP annals},
number = {1},
pages = {473--476},
publisher = {Elsevier},
title = {Exploring due date reliability in production systems using data mining methods adapted from gene expression analysis},
volume = {60},
year = {2011}
}
@incollection{hilgetag2011dynamics,
author = {Hilgetag, Claus C and Müller-Linow, Mark and Hütt, Marc-Thorsten},
booktitle = {Advances in Cognitive Neurodynamics (II)},
pages = {215--219},
publisher = {Springer, Dordrecht},
title = {Dynamics of Hierarchical Neural Networks},
year = {2011}
}
@article{yordanov2011asymmetric,
author = {Yordanov, Pencho and Tyanova, Stefka and Huett, Marc-Thorsten and Lesne, Annick},
journal = {International Journal of Bifurcation and Chaos},
number = {07},
pages = {1895--1905},
publisher = {World Scientific Publishing Company},
title = {Asymmetric transition and time-scale separation in interlinked positive feedback loops},
volume = {21},
year = {2011}
}
@article{sonnenschein2011analog,
author = {Sonnenschein, Nikolaus and Geertz, Marcel and Muskhelishvili, Georgi and Hütt, Marc-Thorsten},
journal = {BMC systems biology},
number = {1},
pages = {1--13},
publisher = {BioMed Central},
title = {Analog regulation of metabolic demand},
volume = {5},
year = {2011}
}
@article{kuhn2010statistical,
author = {Kuhn, Andrea and Dehnert, Manuel and Helm, Werner E and Hütt, Marc-Thorsten},
journal = {Biosystems},
number = {3},
pages = {215--224},
publisher = {Elsevier},
title = {Statistical evidence for ancestral correlation patterns},
volume = {100},
year = {2010}
}
@article{fretter2010phase,
author = {Fretter, Christoph and Krumov, Lachezar and Weihe, Karsten and Müller-Hannemann, Matthias and Hütt, M-T},
journal = {The European Physical Journal B},
number = {2},
pages = {281--289},
publisher = {Springer-Verlag},
title = {Phase synchronization in railway timetables},
volume = {77},
year = {2010}
}
@article{marr2010patterns,
author = {Marr, Carsten and Theis, Fabian J and Liebovitch, Larry S and Hütt, Marc-Thorsten},
journal = {PLoS computational biology},
number = {7},
pages = {e1000836},
publisher = {Public Library of Science San Francisco, USA},
title = {Patterns of subnet usage reveal distinct scales of regulation in the transcriptional regulatory network of Escherichia coli},
volume = {6},
year = {2010}
}
@article{smith2010network,
author = {Smith, James and Hütt, Marc-Thorsten},
journal = {Systems Biology in Psychiatric Research: From High-Throughput Data to Mathematical Modeling},
pages = {243--276},
publisher = {Wiley-VCH Verlag GmbH & Co. KGaA Weinheim, Germany},
title = {Network dynamics as an interface between modeling and experiment in systems biology},
year = {2010}
}
@article{windt2010graph,
author = {Windt, K and Hütt, M-T},
journal = {CIRP annals},
number = {1},
pages = {461--464},
publisher = {Elsevier},
title = {Graph coloring dynamics: A simple model scenario for distributed decisions in production logistics},
volume = {59},
year = {2010}
}
@incollection{liebovitch2010determining,
author = {Liebovitch, Larry S and Shehadeh, Lina A and Jirsa, Viktor K and Hütt, Marc-Thorsten and Marr, Carsten},
booktitle = {Handbook of research on computational methodologies in gene regulatory networks},
pages = {405--428},
publisher = {IGI Global},
title = {Determining the properties of gene regulatory networks from expression data},
year = {2010}
}
@article{geberth2010combining,
author = {Geberth, Daniel and Hütt, Marc-Thorsten},
journal = {Physica A: Statistical Mechanics and its Applications},
number = {2},
pages = {249--258},
publisher = {Elsevier},
title = {Combining spiral and target wave detection to analyze excitable media dynamics},
volume = {389},
year = {2010}
}
@article{schneeweiss2009mechanism,
author = {Schneeweiss, Clemens and Garstka, Malgorzata and Smith, James and Hütt, Marc-Thorsten and Springer, Sebastian},
journal = {Molecular immunology},
number = {10},
pages = {2054--2063},
publisher = {Pergamon},
title = {The mechanism of action of tapasin in the peptide exchange on MHC class I molecules determined from kinetics simulation studies},
volume = {46},
year = {2009}
}
@article{luttge2009talking,
author = {Lüttge, U and Hütt, M-Th},
journal = {Nova Acta Leopoldina NF},
number = {357},
pages = {161--174},
title = {Talking Patterns: Communication of organisms at different levels of organization---an alternative view of systems biology},
volume = {96},
year = {2009}
}
@incollection{hameister2009systematics,
author = {Hameister, Jörn and Helm, Werner E and Hütt, Marc-Thorsten and Dehnert, Manuel},
booktitle = {Advances in Data Analysis, Data Handling and Business Intelligence},
pages = {627--637},
publisher = {Springer, Berlin, Heidelberg},
title = {Systematics of short-range correlations in eukaryotic genomes},
year = {2009}
}
@article{sonnenschein2009ranges,
author = {Sonnenschein, Nikolaus and Hütt, Marc-Thorsten and Stoyan, Helga and Stoyan, Dietrich},
journal = {BMC systems biology},
number = {1},
pages = {1--11},
publisher = {BioMed Central},
title = {Ranges of control in the transcriptional regulation of Escherichia coli},
volume = {3},
year = {2009}
}
@article{geberth2009predicting,
author = {Geberth, Daniel and Hütt, Marc-Thorsten},
journal = {PLoS computational biology},
number = {7},
pages = {e1000422},
publisher = {Public Library of Science San Francisco, USA},
title = {Predicting the distribution of spiral waves from cell properties in a developmental-path model of Dictyostelium pattern formation},
volume = {5},
year = {2009}
}
@article{marr2009outer,
author = {Marr, Carsten and Hütt, Marc-Thorsten},
journal = {Physics Letters A},
number = {5},
pages = {546--549},
publisher = {Elsevier},
title = {Outer-totalistic cellular automata on graphs},
volume = {373},
year = {2009}
}
@article{hutt2009interplay,
author = {Hütt, Marc and Lesne, Annick},
journal = {Frontiers in neuroinformatics},
pages = {28},
publisher = {Frontiers},
title = {Interplay between topology and dynamics in excitation patterns on hierarchical graphs},
volume = {3},
year = {2009}
}
@article{hadzhiev2009model,
author = {Hadzhiev, Borislav and Windt, Katja and Bergholz, Werner and Hütt, Marc-Thorsten},
journal = {Advances in Complex Systems},
number = {06},
pages = {549--564},
publisher = {World Scientific Publishing Company},
title = {A model of graph coloring dynamics with attention waves and strategic waiting},
volume = {12},
year = {2009}
}
@article{marr2008reply,
author = {Marr, Carsten and Hütt, Marc-Thorsten and Müller-Linow, Mark},
journal = {Physical Review E},
number = {2},
pages = {023902},
publisher = {APS},
title = {Reply to ``Comment on `Regularizing capacity of metabolic networks'''},
volume = {77},
year = {2008}
}
@article{geberth2008predicting,
author = {Geberth, Daniel and Hütt, Marc-Thorsten},
journal = {Physical Review E},
number = {3},
pages = {031917},
publisher = {APS},
title = {Predicting spiral wave patterns from cell properties in a model of biological self-organization},
volume = {78},
year = {2008}
}
@article{weber2008pattern,
author = {Weber, Sebastian and Hütt, M-T and Porto, MARKUS},
journal = {EPL (Europhysics Letters)},
number = {2},
pages = {28003},
publisher = {IOP Publishing},
title = {Pattern formation and efficiency of reaction-diffusion processes on complex networks},
volume = {82},
year = {2008}
}
@article{muller2008organization,
author = {Müller-Linow, Mark and Hilgetag, Claus C and Hütt, Marc-Thorsten},
journal = {PLoS computational biology},
number = {9},
pages = {e1000190},
publisher = {Public Library of Science San Francisco, USA},
title = {Organization of excitable dynamics in hierarchical biological networks},
volume = {4},
year = {2008}
}
@article{marr2008dissecting,
author = {Marr, Carsten and Geertz, Marcel and Hütt, Marc-Thorsten and Muskhelishvili, Georgi},
journal = {BMC systems biology},
number = {1},
pages = {1--9},
publisher = {BioMed Central},
title = {Dissecting the logical types of network control in gene expression profiles},
volume = {2},
year = {2008}
}
@article{marr2007regularizing,
author = {Marr, Carsten and Müller-Linow, Mark and Huett, Marc-Thorsten},
journal = {Physical Review E},
number = {4},
pages = {041917},
publisher = {American Physical Society},
title = {Regularizing capacity of metabolic networks},
volume = {75},
year = {2007}
}
@article{hilgardt2007reconstruction,
author = {Hilgardt, Christiane and Müller, Stefan C and Hütt, Marc-Thorsten},
journal = {Nonlinear Biomedical Physics},
number = {1},
pages = {1--13},
publisher = {BioMed Central},
title = {Reconstruction of cellular variability from spatiotemporal patterns of Dictyostelium discoideum},
volume = {1},
year = {2007}
}
@incollection{hutt2007noise,
author = {Hütt, Marc-Thorsten and Lüttge, Ulrich},
booktitle = {Rhythms in plants},
pages = {313--339},
publisher = {Springer, Berlin, Heidelberg},
title = {Noise-induced phenomena and complex rhythms: Theoretical considerations, modelling and experimental},
year = {2007}
}
@article{homann2007distinct,
author = {Homann, Ulrike and Meckel, Tobias and Hewing, Jennifer and Hütt, Marc-Thorsten and Hurst, Annette C},
journal = {European journal of cell biology},
number = {8},
pages = {489--500},
publisher = {Urban & Fischer},
title = {Distinct fluorescent pattern of KAT1:: GFP in the plasma membrane of Vicia faba guard cells},
volume = {86},
year = {2007}
}
@article{muller2007consistency,
author = {Müller-Linow, Mark and Weckwerth, Wolfram and Hütt, Marc-Thorsten},
journal = {BMC Systems Biology},
number = {1},
pages = {1--12},
publisher = {BioMed Central},
title = {Consistency analysis of metabolic correlation networks},
volume = {1},
year = {2007}
}
@article{muller2006topology,
author = {Müller-Linow, Mark and Marr, Carsten and Hütt, Marc-Thorsten},
journal = {Physical Review E},
number = {1},
pages = {016112},
publisher = {APS},
title = {Topology regulates the distribution pattern of excitations in excitable dynamics on graphs},
volume = {74},
year = {2006}
}
@article{marr2006similar,
author = {Marr, Carsten and Hütt, Marc-Thorsten},
journal = {Physics Letters A},
number = {5},
pages = {302--305},
publisher = {Elsevier},
title = {Similar impact of topological and dynamic noise on complex patterns},
volume = {349},
year = {2006}
}
@misc{vec2006selbstorganisation,
author = {Vec, Miloš and Hütt, Marc-Thorsten and Freund, Alexandra M},
publisher = {Böhlau Verlag Köln Weimar},
title = {Selbstorganisation: ein Denksystem für Natur und Gesellschaft},
year = {2006}
}
@misc{hutt2006methoden,
author = {Hütt, Marc-Thorsten and Dehnert, Manuel},
publisher = {Springer Berlin},
title = {Methoden der Bioinformatik: Eine Einführung},
year = {2006}
}
@article{dehnert2006informational,
author = {Dehnert, Manuel and Helm, Werner E and Hütt, Marc-Thorsten},
journal = {Physical Review E},
number = {2},
pages = {021913},
publisher = {APS},
title = {Informational structure of two closely related eukaryotic genomes},
volume = {74},
year = {2006}
}
@article{marr2005topology,
author = {Marr, Carsten and Hütt, Marc-Thorsten},
journal = {Physica A: Statistical Mechanics and its Applications},
pages = {641--662},
publisher = {Elsevier},
title = {Topology regulates pattern formation capacity of binary cellular automata on graphs},
volume = {354},
year = {2005}
}
@article{hutt2005interplay,
author = {Hütt, M-Th and Lüttge, U},
journal = {Physica A: Statistical Mechanics and its Applications},
number = {2-4},
pages = {207--226},
publisher = {North-Holland},
title = {The interplay of synchronization and fluctuations reveals connectivity levels in networks of nonlinear oscillators},
volume = {350},
year = {2005}
}
@article{hutt2005network,
author = {Hütt, Marc-Thorsten and Lüttge, Ulrich},
journal = {Progress in Botany},
pages = {277--310},
publisher = {Springer, Berlin, Heidelberg},
title = {Network dynamics in plant biology: current progress in historical perspective},
year = {2005}
}
@article{dehnert2005information,
author = {Dehnert, Manuel and Helm, Werner E and Hütt, Marc-Thorsten},
journal = {Gene},
number = {1},
pages = {81--90},
publisher = {Elsevier},
title = {Information theory reveals large-scale synchronisation of statistical correlations in eukaryote genomes},
volume = {345},
year = {2005}
}
@article{dehnert2005genome,
author = {Dehnert, Manuel and Plaumann, Rainer and Helm, Werner E and Hütt, Marc-Th},
journal = {Journal of computational Biology},
number = {5},
pages = {545--553},
publisher = {Mary Ann Liebert, Inc. 2 Madison Avenue Larchmont, NY 10538 USA},
title = {Genome phylogeny based on short-range correlations in DNA sequences},
volume = {12},
year = {2005}
}
@misc{freund2004selbstorganisation,
author = {Freund, Alexandra M and Hütt, Marc-Thorsten and Vec, Miloš},
publisher = {Österreichische Arbeitsgemeinschaft für Systemische Therapie und Systemische~łdots},
title = {Selbstorganisation: Aspekte eines Begriffs-und Methodentransfers},
year = {2004}
}
@article{busch2004scale,
author = {Busch, Hauke and Hütt, Marc-Thorsten},
journal = {International Journal of Bifurcation and Chaos},
number = {06},
pages = {1957--1973},
publisher = {World Scientific Publishing Company},
title = {Scale-dependence of spatiotemporal filters inspired by cellular automata},
volume = {14},
year = {2004}
}
@incollection{luttge2004high,
author = {Lüttge, Ulrich and Hütt, M-Th},
booktitle = {Progress in Botany},
pages = {235--263},
publisher = {Springer, Berlin, Heidelberg},
title = {High frequency or ultradian rhythms in plants},
year = {2004}
}
@article{hutt2003effect,
author = {Hütt, Marc-Thorsten and Busch, Hauke and Kaiser, Friedemann},
journal = {Nova Acta Leopold},
pages = {381--404},
title = {The effect of biological variability on spatiotemporal patterns: model simulations for a network of biochemical oscillators},
volume = {332},
year = {2003}
}
@article{beck2003nonlinear,
author = {Beck, F and Hütt, M-Th and Lüttge, U},
journal = {Nova Acta Leopold Volume},
title = {Nonlinear dynamics and the spatiotemporal principles of biology},
volume = {332},
year = {2003}
}
@inproceedings{huett2003method,
author = {Huett, Marc-Thorsten},
booktitle = {Noise in Complex Systems and Stochastic Dynamics},
organization = {SPIE},
pages = {383--395},
title = {Method for detecting the signature of noise-induced structures in spatiotemporal data sets: an application to excitable media},
volume = {5114},
year = {2003}
}
@article{hutt2003method,
author = {Hütt, Marc-Thorsten},
journal = {Noise in Complex Systems and Stochastic Dynamics},
pages = {383},
publisher = {SPIE},
title = {Method for detecting the signature of noise-induced},
year = {2003}
}
@article{bohn2003identification,
author = {Bohn, Andreas and Hinderlich, Sven and Hütt, M-T and Kaiser, Friedemann and Lüttge, Ulrich},
publisher = {Walter de Gruyter},
title = {Identification of rhythmic subsystems in the circadian cycle of crassulacean acid metabolism under thermoperiodic perturbations},
year = {2003}
}
@article{wacke2003ca2+,
author = {Wacke, M and Thiel, G and Hütt, M-T},
journal = {The Journal of membrane biology},
number = {3},
pages = {179--192},
publisher = {Springer-Verlag},
title = {Ca2+ dynamics during membrane excitation of green alga Chara: model simulations and experimental data},
volume = {191},
year = {2003}
}
@article{dehnert2003discrete,
author = {Dehnert, Manuel and Helm, WE and Hütt, M-Th},
journal = {Physica A: Statistical Mechanics and its Applications},
number = {3-4},
pages = {535--553},
publisher = {North-Holland},
title = {A discrete autoregressive process as a model for short-range correlations in DNA sequences},
volume = {327},
year = {2003}
}
@article{bohn2002responses,
author = {Bohn, Andreas and Rascher, Uwe and Hütt, Marc-Thorsten and Kaiser, Friedemann and Lüttge, Ulrich},
journal = {Biological rhythm research},
number = {2},
pages = {151--170},
publisher = {Taylor & Francis},
title = {Responses of a plant circadian rhythm to thermoperiodic perturbations with asymmetric temporal patterns and the rate of temperature change},
volume = {33},
year = {2002}
}
@article{hutt2002period,
author = {HüTT, M-TH and Rascher, U and Beck, F and Lüttge, U},
journal = {Journal of theoretical biology},
number = {3},
pages = {383--390},
publisher = {Elsevier},
title = {Period-2 cycles and 2: 1 phase locking in a biological clock driven by temperature pulses},
volume = {217},
year = {2002}
}
@article{hutt2002nonlinear,
author = {Hütt, M-Th and Lüttge, U},
journal = {Plant Biology},
number = {03},
pages = {281--297},
publisher = {o̧pyright Georg Thieme Verlag Stuttgart˙ New York},
title = {Nonlinear dynamics as a tool for modelling in plant physiology},
volume = {4},
year = {2002}
}
@article{hutt2002method,
author = {Hütt, M-Th and Neff, R and Busch, H and Kaiser, F},
journal = {Physical Review E},
number = {2},
pages = {026117},
publisher = {APS},
title = {Method for detecting the signature of noise-induced structures in spatiotemporal data sets},
volume = {66},
year = {2002}
}
@article{rascher2001spatiotemporal,
author = {Rascher, Uwe and Hütt, Marc-Thorsten and Siebke, Katharina and Osmond, Barry and Beck, Friedrich and Lüttge, Ulrich},
journal = {Proceedings of the National Academy of Sciences},
number = {20},
pages = {11801--11805},
publisher = {National Academy of Sciences},
title = {Spatiotemporal variation of metabolism in a plant circadian rhythm: the biological clock as an assembly of coupled individual oscillators},
volume = {98},
year = {2001}
}
@article{rascher2001spatio,
author = {Rascher, U and Hütt, M-Th and Osmond, CB and Siebke, K and Lüttge, U},
journal = {Science Access},
number = {1},
publisher = {CSIRO PUBLISHING},
title = {Spatio-temporal variation of photosynthetic activity during the endogenous circadian CAM rhythm of Kalanchoë daigremontiana: the biological clock as an assembly of coupled nonlinear oscillators},
volume = {3},
year = {2001}
}
@article{hutt2001quantification,
author = {Hütt, M-Th and Neff, R},
journal = {Physica A: Statistical Mechanics and its Applications},
number = {3-4},
pages = {498--516},
publisher = {North-Holland},
title = {Quantification of spatiotemporal phenomena by means of cellular automata techniques},
volume = {289},
year = {2001}
}
@article{busch2001effect,
author = {Busch, H and Hütt, M-Th and Kaiser, F},
journal = {Physical Review E},
number = {2},
pages = {021105},
publisher = {APS},
title = {Effect of colored noise on networks of nonlinear oscillators},
volume = {64},
year = {2001}
}
@incollection{hutt2001dynamical,
author = {Hütt, M-Th and Rascher, U and Lüttge, U},
booktitle = {Emergent Nature: Patterns, Growth and Scaling in the Sciences},
pages = {123--133},
title = {Dynamical Regimes in the Metabolic Cycle of a Higher Plant are Characterized by Different Fractal Dimensions},
year = {2001}
}
@incollection{hutt2001dynamical,
author = {Hütt, M-Th and Rascher, U and Lüttge, U},
booktitle = {Emergent Nature: Patterns, Growth and Scaling in the Sciences},
pages = {123--133},
title = {Dynamical Regimes in the Metabolic Cycle of a Higher Plant are Characterized by Different Fractal Dimensions},
year = {2001}
}