Program

Chair: Marija CVIJOVIC, Gothenburg, Sweden


Matteo BARBERIS, Amsterdam, Netherlands  
04:00 pm - 04:20 pm
Deciphering yeast physiology by a multi‐scale framework integrating cell cycle and metabolism

David HENRIQUES, Vigo, Spain
04:20 pm - 04:40 pm 
Enabling the comparison of conventional and non-conventional winemaking Saccharomyces species with genome-scale models

Frederique CLEMENT, Palaiseau, France 
04:40 pm - 05:00 pm               
A multiscale mathematical model of neural progenitor dynamics during the development of the cerebral cortex in mice

Annabelle BALLESTA, Villejuif, France
05:00 pm - 05:20 pm
A multi-scale systems pharmacology approach for personalizing cancer chronotherapy

Chair: Benjamin AUDIT, Lyon, France


Erika TSINGOS, Heidelberg, Germany
04:00 pm - 04:20 pm
Coordination of different stem cell niches during homeostatic growth of the adult fish eye

Elias FRIMAN, Lausanne, Switzerland
04:20 pm - 04:40 pm
OCT4 is required at the M-G1 transition to reestablish chromatin accessibility at enhancers in pluripotent stem cells

Mahé RACCAUD, Lausanne, Switzerland   
04:40 pm - 05:00 pm        
Mitotic chromosome binding predicts transcription factor dynamics, target site occupancy and ability to modify chromatin accessibility

Didier GONZE, Bruxelles, Belgium
05:00 pm - 05:20 pm   
Modeling cell fate specification during early embryonic development in mouse

Honda NAOKI, Kyoto, Japan
05:20 pm - 05:40 pm
Noise-resistant developmental reproducibility in vertebrate somite formation

Chair: Olivier GANDRILLON, Lyon, France


Melanie STEFAN, Edinburgh, United Kingdom
04:00 pm - 04:20 pm
Modelling hyperpolarisation-gated synaptic plasticity in motor learning

Uiryong KANG, Daejeon, South Korea
04:20 pm - 04:40 pm
Robustness of controllability in structural brain networks

Marti JETT, Washington, United States
04:40 pm - 05:00 pm
Systems biology applied to post-traumatic stress disorder to stratify into subtypes

Dennis VITKUP, New York, United States
05:00 pm - 05:20 pm
Gene networks, neuron types, and brain circuits underlying common psychiatric disorders

Chair: Frédérique CLEMENT, Palaiseau, France


Hugo DOURADO, Düsseldorf, Germany
10:50 am - 11:10 pm
Enzyme and substrate concentrations in cellular reaction networks at maximal growth rate

Romain YVINEC, Nouzilly, France
11:10 am - 11:30 am
Using dynamical reaction network to infer drugs selectivity in pharmacology

Corinna SCHMALOHR, Cologne, Germany
11:30 am - 11:50 am
Detecting epistasis using random forest

Elif OZKIRIMLI, Istanbul, Turkey
11:50 am - 12:10 pm
SMILES-based prediction of drug-target interaction binding affinity

Congxin LI, Heidelberg, Germany
12:10 pm - 12:30 pm
Transcriptional regulation out of equilibrium: theory and experiment

Chair: Matteo BARBERIS, Amsterdam, Netherlands

Eyal SIMONOVSKY, Beer Sheva, Israel
10:50 am - 11:10 am
Large-scale analysis of human gene expression variability associates highly variable drug targets with lower drug effectiveness and safety

Xin LAI, Erlangen, Germany
11:10 am - 11:30 am
Mathematical modelling of E2F1 repression by cooperative microRNA pairs in the context of anticancer chemotherapy resistance

Juan MARTINEZ, Mexico City, Mexico  
11:30 am - 11:50 am
Controllability analysis of the core gene regulatory network underlying epithelial-to-mesenchymal transition in the context of epithelial cancer

Dirk FEY, Dublin, Ireland 
11:50 am - 12:10 pm               
Patient-specific modelling of the network dynamics induced by chemotherapeutic drugs in primary and relapsed tumours

Lan NGUYEN, Melbourne, Australia
12:10 pm - 12:30 pm 
Optimizing drug combinations for cancer treatment using integrative network modelling

Chair: Daniel JOST, La Tronche, France


Om PATANGE, Cambridge, United Kingdom
10:50 am - 11:10 am
E. coli can survive stress by noisy growth modulation

Johannes BORGQVIST, Gothenburg, Sweden
11:10 am - 11:30 am
The triangle of ageing: a model of the accumulation of damaged proteins in Saccharomyces cerevisiae shows how retention enables replicative ageing

Mona TONN, London, United Kingdom
11:30 am - 11:50 am
Emergence of non-genetic heterogeneity in metabolic reactions

Christian EULER , Toronto, Canada
11:50 am - 12:10 pm
Functional topology of the E. coli small molecule regulatory network

Nathalie Garcon PharmD, PhD - Chief Executive Officer, Chief Scientific Officer BIOASTER, Microbiology Technology Institute

System Biology in vaccines: toward population/personalized vaccination? (15 min)

Wivine Burny, PhD - Translational science senior manager, Discovery and Performance Unit, GSK Vaccines

Correlates of adjuvanticity: a comparison of 4 adjuvanted vaccines in humans  (20 min)

Nitin S. Baliga, MSc, PhD - Senior Vice President, Director and Professor, Institute for Systems Biology

A multiscale systems approach to overcome emergence of antimicrobial resistance in TB (20 min)

Chair: Didier GONZE, Brussels, Belgium


Lidia YAMAMOTO, Leuven, Belgium
04:00 pm - 04:20 pm
Simulating cellular movements in early C. elegans embryogenesis

Sophie PANTALACCI, Lyon, France
04:20 pm - 04:40 pm
Making and erasing patterns in the tooth field: lessons from Edar dynamics and mathematical modeling

Olivier ALI, Lyon, France
04:40 pm - 05:00 pm
3D mechanical stress patterning during flower morphogenesis

Edgar HERRERA DELGADO, London United Kingdom
05:00 pm - 05:20 pm      
Enhancer function underpins essential properties of gene regulatory networks for patterning precision

Lutz BRUSCH, Dresden, Germany
05:20 pm - 05:40 pm 
Wet-tip versus dry-tip regimes of osmotically driven bile flow in the liver

Chair: Pedro MENDES, Farmington, United States


Chris PLAISIER, Tempe, United States  
04:00 pm - 04:20 pm  
Causal and mechanistic pan-cancer immune regulatory network deciphered using systems genetics network analysis (SYGNAL)

Katsuyuki YUGI, Yokohama, Japan
04:20 pm - 04:40 pm        
Dynamic metabolomics and phosphoproteomics reveal that insulin primes the adipocyte for glucose metabolism

Jean-Michel ARBONA, Lyon, France
04:40 pm - 05:00 pm       
Emergence of the spatio-temporal replication program: role of origin distribution heterogeneity and 3D chromatin structure

Magali RICHARD, La Tronche, France
05:00 pm - 05:20 pm  
PenDA, a rank-based method for personalized differential analysis: application to lung cancer

Pascale CRÉPIEUX, Nouzilly, France
05:20 pm - 05:40 pm         
A hormone-regulated translatome in primary cells highlights a positive feedback loop of signaling components operating at the level of translation

Chair: Ellen DECAESTECKER, Kortrijk, Belgium

Brian JI, New York, United States
04:00 pm - 04:20 pm
Quantifying spatiotemporal dynamics and noise in microbiome studies using replicate sampling

Juan POYATOS, Madrid, Spain 
04:20 pm - 04:40 pm
High-order interactions and the predictability of function in microbial consortia

German PLATA, New York, United States 
04:40 pm - 05:00 pm           
The percolation of metabolism and bacterial lifestyle and evolvability

Marco GALARDINI, Cambridge, United Kingdom 
05:00 pm - 05:20 pm               
Systematic evaluation of conditional gene essentiality changes across genetic backgrounds in Saccharomyces cerevisiae

Gabriel CARVALHO, Villeurbanne, France
05:20 pm - 05:40 pm
Natural transformation: acquisition and removal of mobile genetic elements in stochastic environments

Chair: Nathalie BALABAN, Jerusalem, Israel


Rinat ARBEL-GOREN, Rehovot, Israel 
10:50 am - 11:10 am
Noise and correlated gene expression in a one-dimensional organism

Nacho MOLINA, Strasbourg, France 
11:10 am - 11:30 am 
Experimental and theoretical study of nuclear diffusion dynamics of transcription factors

Marie GUILBERT, Villeneuve d'Ascq, France
11:30 am - 11:50 am          
Cell-to-cell variability in the activation of the heat shock response

Aneta KOSESKA , Dortmund, Germany
11:50 am - 12:10 pm
Spatially distributed network between EGFR and phosphatases optimizes growth factor sensing at criticality

Lorenz RIPKA, Mainz, Germany
12:10 pm - 12:30 pm  
Integration of GDF11 and TGF-β on the SMAD-signaling pathway - modelling population average and variability based on single cell data

Chair: Delphine ROPERS, Montbonnot, France


Vakil TAKHAVEEV, Groningen, Netherlands 
10:50 am - 11:10 am
What causes metabolic oscillations in the eukaryotic cell?

Andrea WEISSE, London, United Kingdom
11:10 am - 11:30 am
Stochasticity of cellular growth: sources, propagation and consequences

Shiny MARTIS B., Lyon, France 
11:30 am - 11:50 am
Interplay of local and global regulators in pectin catabolism during plant infection by Dickeya dadantii.

Bruno MARTINS, Cambridge, United Kingdom
11:50 am - 12:10 pm  
Circadian regulation of cell size, division timing and growth in cyanobacteria

Chair: Igor GORYANIN, Okinawa, Japan


Qiong YANG, Ann Arbor, United States 
10:50 am - 11:10 am
An artificial cell-cycle system: how network structures modulate the clock functions

Carlos TOSCANO OCHOA, Barcelona, Spain
11:10 am - 11:30 am      
On the feasibility of complex synthetic biological circuits

Britte BOUCHAUT, Delft, Netherlands 
11:30 am - 11:50 am     
Perceptions of inherent safety: a comparison study from the bioengineering field

Dvir SCHIRMAN, Revadim, Israel
11:50 am - 12:10 pm            
Optimization of gene expression through cost-effective promoter architectures

Claude LORMEAU, Zurich, Switzerland
12:10 pm - 12:30 pm    
Model-based design of robust synthetic biological circuits

Chair: Mustafa KHAMMASH, Basel, Switzerland


Satya SAMAL, Aachen, Germany 
10:50 am - 11:10 am
Sensitive parameters and tipping points of biochemical networks with potential applications in precision medicine

Anne POUPON, Nouzilly, France 
11:10 am - 11:30 am      
Parameter estimation in dynamical models for systems biology – the delicate balance between identifiability and predictivity

Ozgur AKMAN, Exeter, United Kingdom
11:30 am - 11:50 am    
The parameter explosion problem: extending the scope of GRN modelling by combining reduced models with evolutionary computation

Martial GUILLAUD, Vancouver, Canada
11:50 am - 12:10 pm
Hyperspectral cell sociology analysis of histological specimens

Serge PELET, Lausanne, Switzerland
12:10 pm - 12:30 pm
Dynamic single cell analysis of a cell fate decision system

Chair: Jacqueline MARVEL, Lyon, France


Teresa LEHNERT, Jena, Germany 
10:50 am - 11:10 am
Characterization of different sepsis phases by virtual infection modeling of the innate immune response in human whole blood

Anna MEDYUKHINA, Jena, Germany
11:10 am - 11:30 am  
Automated image analysis of mast cell - dendritic cell interactions reveals weapon transfer in immune system

Chloe AUDEBERT, Villeurbanne, France
11:30 am - 11:50 am 
Non-linear mixed effects models to study inter-individual variability in CD8 T cell immune responses in mice.

Chen-Hsiang YEANG, Taipei, Taiwan 
11:50 am - 12:10 pm       
Modelling bistable tumour population dynamics to design effective treatment strategies

Marcel SCHILLING, Heidelberg, Germany
12:10 pm - 12:30 pm             
The complex life of Smad isoforms determines gene expression in hepatocellular carcinoma

Chair: Ina KOCH, Frankfurt, Germany


Jonas BÉAL, Paris, France
10:50 am - 11:10 am        
Instantiation of patient-specific logical models with multi-omics data allows clinical stratification of patients

Oleksii RUKHLENKO, Dublin, Ireland
11:10 am - 11:30 am        
Structure-based kinetic modelling reveals kinase inhibitor combinations to overcome oncogenic RAS signalling

Yaroslav NIKOLAEV, Zurich, Switzerland
11:30 am - 11:50 am 
Systems NMR: simultaneous quantitative monitoring of RNA, protein, and metabolite dynamics for biomolecular network analysis

Daniel JOST, La Tronche, France
11:50 am - 12:10 pm             
Assigning function to natural allelic variation via dynamic modeling of gene network induction

Ulysse HERBACH, Lyon, France 
12:10 pm - 12:30 pm   
Inferring gene regulatory networks using single-cell data: from mechanistic modelling to statistics

Chair: Anne POUPON, Nouzilly, France


Laurent GUYON, Grenoble, France
04:00 pm - 04:20 pm       
miRNA selection using miRNA network a priori showed improved reliability and identify functionally related miRNAs

Andras GYORGY, Abu Dhabi, United Arab Emirates
04:20 pm - 04:40 pm
Optimal part characterization with shared cellular resources

Arthur GOLDBERG, New York, United States
04:40 pm - 05:00 pm       
A multialgorithmic simulator for whole-cell biochemical models

Silas Boye NISSEN, Copenhagen, Danmark
05:00 pm - 05:20 pm
Four simple rules that are sufficient to generate the mammalian blastocyst 

Jörn STARRUSS, Dresden, Germany 
05:20 pm - 05:40 pm      
Morpheus: a user-friendly and extensible simulation framework for declarative modelling in multiscale and multicellular systems biology

Chair: Maria Manuela NOGUEIRA, Lyon, France


Fortunato BIANCONI, Perugia, Italy
04:00 pm - 04:20 pm     
Machine learning pipeline for pathways analysis with reverse phase microarray data of non-small cell lung cancer cell lines and different drugs

Michiel ADRIAENS, Maastricht, Netherlands
04:20 pm - 04:40 pm 
Putting the squeeze on RNA-seq data: mapping individualized genetic and epigenetic regulation in complex diseases

Avijit PODDER, New Delhi, India
04:40 pm - 05:00 pm                     
Therapeutic understanding of human dopaminergic system in neurological diseases - a systems biology approach

Pedro MENDES, Farmington, United States
05:00 pm - 05:20 pm
Transforming physiological models from mice to humans - the case of iron homeostasis.

Dominik LUTTER, Neuherberg, Germany
05:20 pm - 05:40 pm
A circadian metabolomics atlas of the body under chronic nutrient stress

Chair: Ralf STEUER, Berlin, Germany

Niklas KORSBO, Cambridge, United Kingdom
04:20 pm - 04:40 pm  
Precise adaptation in stem cell control

Martin  ZAUSER, Heidelberg, Germany 
04:40 pm - 05:00 pm  
Automated image analysis and modeling of calcium waves in plant roots

Jian-Geng CHIOU, Durham, United States
05:00 pm - 05:20 pm           
Principles that govern competition or co-existence in Rho-GTPase driven polarization in the budding yeast

Atsushi MOCHIZUKI, Kyoto, Japan
05:20 pm - 05:40 pm            
Controlling cell fate specification system based on network structure