Days: Sunday, August 6th Monday, August 7th Tuesday, August 8th Wednesday, August 9th Thursday, August 10th Friday, August 11th
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09:00 | COMBINE Tutorial - Modelling and Simulation Tools in Systems Biology ( abstract ) |
09:00 | Tutorial: Metabolic flux modeling and computer aided strain design with cobrapy, cameo and DD-DeCaF ( abstract ) |
09:00 | The PATRIC bioinformatics resource center for omic data analysis ( abstract ) |
For details, please see the link:
https://register.cpe.vt.edu/search/publicCourseSearchDetails.do?method=load&courseId=520618
09:00 | Workshop: Multi-scale metabolic modeling and engineering ( abstract ) |
12:30 | Workshop: 4th International Hands-on Tutorial on Logical Modeling ( abstract ) |
13:00 | Network Dynamics and Cell Physiology ( abstract ) |
View this program: with abstractssession overviewtalk overview
08:30 | Quantitative Systems Pharmacology ( abstract ) |
For more information, please see https://github.com/Murali-group/2017-ICSB-graphspace-tutorial
08:30 | Tutorial: GraphSpace: Interdisciplinary Collaborations in Network Biology ( abstract ) |
08:30 | COPASI Tutorial ( abstract ) |
08:30 | Mathematical and computational foundations of infectious disease epidemiology ( abstract ) |
08:30 | Workshop: Developing Tutorials For Research Tools And Methods ( abstract ) |
08:30 | Workshop on Drug Response Measurement and Analysis ( abstract ) |
09:00 | Tutorial on StochSS: An Integrated Development Environment for Simulation and Analysis of Discrete Stochastic Biochemical Models ( abstract ) |
13:30 | Programming bacteria in time and space ( abstract ) |
14:00 | Engineering Next-Generation T Cells for Cancer Immunotherapy ( abstract ) |
14:30 | Real-time metabolomics reveals the decision mechanism for cell division in E. coli ( abstract ) |
15:00 | Coffee Break ( abstract ) |
15:30 | Dynamic logic models complement machine learning to improve cancer treatment ( abstract ) |
16:30 | The metabolic reconstruction of a minimal cell ( abstract ) |
16:50 | A Synthetic Biosensor to Determine Peroxisomal Acetyl-CoA Concentration for Compartmentalized Metabolic Engineering. ( abstract ) |
17:10 | Compartmentalization of lignin biosynthesis using either phenylalanine or tyrosine in Brachypodium distachyon ( abstract ) |
17:30 | Data-Driven Design of Cell Factories and Communities ( abstract ) |
17:50 | Extended GEM of Streptomyces Coelicolor for production of secondary metabolites ( abstract ) |
18:10 | KineticDatanator: Tools for Aggregating Data for Biochemical Modeling ( abstract ) |
16:30 | Oscillatory stimuli differentiate adapting circuit topologies ( abstract ) |
16:50 | Mapping BMP pairwise interactions describes how cells compute responses to BMP mixtures ( abstract ) |
17:10 | Systems modeling of interplay among extracellular cytokines regulating phenotypic plasticity of CD4+ T-cell differentiation ( abstract ) |
17:30 | Stochastic model of HPV early promoter predicts bursts like pattern of gene expression ( abstract ) |
17:50 | Identifying non-genetic origins of cell-to-cell variability in B-lymphocyte proliferation through systems biology ( abstract ) |
18:10 | The biochemical design of the mitotic checkpoint ( abstract ) |
16:30 | Systems Biology of Herbal Medicine: Pharmacological property of complex herbal formulation ( abstract ) |
16:50 | Cell Cycle Model System for the Identification of Molecular Markers of Cancer ( abstract ) |
17:10 | Genome mining of Bacillus licheniformis strains from the Red Sea with focus on the biosynthesis of antimicrobial products ( abstract ) |
17:30 | Toward A Whole-Cell Model of H1 Human Embryonic Stem Cells (hESCs): A Genome-Scale Metabolic Model ( abstract ) |
17:50 | A strategy for modelling and visualising phosphoproteomic datasets ( abstract ) |
18:10 | Multi-omics analysis of T helper 22 cells ( abstract ) |
18:30 | Welcome ( abstract ) |
18:45 | Single-Cell Genomics: When Stochasticity Meets Precision ( abstract ) |
View this program: with abstractssession overviewtalk overview
08:30 | Stochastic frequency matching of incompletely penetrant onco-phenotypes ( abstract ) |
09:00 | Optimizing drug combinations using single-cell perturbation response to account for intratumoral heterogeneity ( abstract ) |
09:30 | Tuesday Morning Coffee Break ( abstract ) |
10:00 | Systems analysis of invasive cancer spread: from the bench to bedside ( abstract ) |
10:30 | Ecological Dynamics of Gut Microbiota ( abstract ) |
10:50 | The Transition from Acute Kidney Injury to Chronic Kidney Diseases Comes from Evolutionary Compromise ( abstract ) |
11:10 | DECIPHERING CELL CYCLE ROBUSTNESS BY A MULTI-SCALE FRAMEWORK INTEGRATING CELL CYCLE AND METABOLISM IN BUDDING YEAST ( abstract ) |
11:30 | Automatic Inference of Dynamic Regulatory Networks Controlling Shape And Form ( abstract ) |
11:50 | Understanding the self-renewal, differentiation and death of intestinal cells ( abstract ) |
10:30 | Patient-specific modelling and cell-to-cell variability of the JNK-p53 activation dynamics in primary and relapsed tumours. ( abstract ) |
10:50 | Comprehensive Proteogenomic Characterization of Human Prostate Cancer Cells Reveals Many Missing Proteins and Novel Protein Variants ( abstract ) |
11:10 | Quantifying epithelial-mesenchymal plasticity in cancer and its association with patient survival ( abstract ) |
11:30 | Defining subtype taxonomies and functional architectures of the breast cancer kinome ( abstract ) |
11:50 | Phosphoproteomics-Guided Discovery of Effective Combination Therapies in Cancer ( abstract ) |
10:30 | Quantitative methods for detecting origins of interferons signalling sensitivity ( abstract ) |
10:50 | Computational Construction of Toxicant Signaling Networks ( abstract ) |
11:10 | Circadian clock protein Cry regulates cellular quiescence depth ( abstract ) |
11:30 | Modeling the spatio-temporal replication program ( abstract ) |
11:50 | Functional diversification of signaling by GPCR localization ( abstract ) |
12:10 | Cells read TGF-beta temporal information through a nested relay mechanism ( abstract ) |
14:00 | Keynote Talk: How budding yeast allocates its translation resources ( abstract ) |
15:00 | Mathematical models for cell polarization and gradient sensing ( abstract ) |
15:30 | Tuesday Afternoon Coffee Break ( abstract ) |
16:00 | NIH/NCI Talk ( abstract ) |
16:30 | Insulin receptor substrate (IRS) dictates differential responses to insulin and insulin-like growth factor I (IGF1) stimulation ( abstract ) |
16:50 | UNCOVERING A NETWORK MOTIF UNDERLYING A MINIMAL AUTONOMOUS OSCILLATOR OF THE BUDDING YEAST CELL CYCLE ( abstract ) |
17:10 | The link between dynamic modes of p53 and cell-fate decision in the DNA damage response ( abstract ) |
17:30 | Mathematical modeling of an “ectopic” spindle assembly checkpoint ( abstract ) |
17:50 | Controlling Quiescence Heterogeneity by an Rb-E2F Network Switch ( abstract ) |
16:30 | Extracting dysregulated subnetworks in the non-small cell lung carcinoma tumor microenvironment ( abstract ) |
16:50 | A Simple Formula for Fractional Killing ( abstract ) |
17:10 | Dynamic network entropy as predictor of drug response in cancer cells. ( abstract ) |
17:30 | Systematic Approach to Understanding Selective Cancer Susceptibility to Pharmacological Ascorbate Therapy ( abstract ) |
17:50 | Co-target identification from context specific kinetic models of folate metabolism in methotrexate resistant cancers ( abstract ) |
16:30 | A Black Box Model of Patient Response to Hemodialysis ( abstract ) |
16:50 | Nano-scale imaging and systems modelling of amyloid protein self-assembly ( abstract ) |
17:10 | Reconstructing dynamic processes from high dimensional snap-shot data ( abstract ) |
17:30 | Overrepresentation of feed forward loops can be driven by simple signal recognition, without the need for noise filtering ( abstract ) |
17:50 | Aggregating RNA-Seq reads from multiple genes in KEGG metabolic pathways improves interpretability in gene expression pathway analysis ( abstract ) |
18:10 | Model reduction under parameter uncertainty ( abstract ) |
We ask all posters be displayed in both poster sessions. For poster presentation, please check the poster presentation assignment page for detailed poster numbers.
18:30 | Simulating the Evolutionary Dynamics of Single-stranded RNA Virus Populations ( abstract ) |
18:30 | Nontargeted in vitro metabolomics identifies wide-spread enyzme promiscuity in Escherichia coli ( abstract ) |
18:30 | A Dynamic KaiA-KaiC Interaction Maintains the Oscillation of the KaiABC Circadian Clock ( abstract ) |
18:30 | Coupled feed-forward and feedback of ATM/p53/Mdm2/Wip1 control cell type-dependent bimodal p53 dynamics and cell fate response ( abstract ) |
18:30 | Integrated regulation of mRNA synthesis and decay decodes TNF signaling during inflammatory muscle-atrophy. ( abstract ) |
18:30 | Spatiotemporal model for pattern formation in phage-bacteria system ( abstract ) |
18:30 | Investigate metabolic reprogramming of Saccharomyces cerevisiae for xylose-based fatty alcohol production via 13C metabolic flux Analysis ( abstract ) |
18:30 | CoReg: Identification of co-regulators in genome scale transcription regulatory ( abstract ) |
18:30 | Large scale simulations of a damage accumulation model in Saccharomyces cerevisiae reveal the benefit of dynamic damage retention in unicellular ageing ( abstract ) |
18:30 | Heparin-based hydrogel as a biomimetic 3D matrix for solid-phase growth factor presentation and cultivation of breast cancer cells ( abstract ) |
18:30 | Measuring neutrophil migration patterns using microfluidic devices and ODE modeling of the mechanistic molecular pathways ( abstract ) |
18:30 | Modeling the Metabolic Response to Antibiotic Stress in Bacterial Pathogens ( abstract ) |
18:30 | A Model of the Control Mechanism for the Genetic Circuit in Caulobacter Cell Cycle ( abstract ) |
18:30 | Genome scale metabolic model of Arabidopsis thalina for isoprenoid production ( abstract ) |
18:30 | Kinetics data information retrieval from the literature as public service ( abstract ) |
18:30 | In-silico prioritization of transporter-drug relationships from drug sensitivity screens ( abstract ) |
18:30 | Optimal methylation noise for best chemotactic performance of E. coli ( abstract ) |
18:30 | Mathematical modeling of the unfolded protein response in different breast cancer cell lines ( abstract ) |
18:30 | Systematic Optimization of Protein Secretory Pathways in Saccharomyces cerevisiae to Increase Expression of Hepatitis B Small Antigen ( abstract ) |
18:30 | Clonal evolution in glioblastoma ( abstract ) |
18:30 | Predictive modelling of a batch filter mating process ( abstract ) |
18:30 | SigNetSim : A web platform for building and analyzing mathematical models of molecular signaling networks ( abstract ) |
18:30 | Cell-type specific optimized therapy for colorectal cancer based on dynamical analysis of variant network models ( abstract ) |
18:30 | Specificity and sensitivity of antigen sensing by the T cell receptor is enhanced by the co-receptor CD8 ( abstract ) |
18:30 | Memote - A testing suite for constraint-based metabolic models ( abstract ) |
18:30 | miRNA expression shifts as an initiator event in carcinogenesis induced by Bisphenol A in human prostate cells ( abstract ) |
18:30 | Mathematical modeling of regulatory interactions in the fatty acid synthesis pathway ( abstract ) |
18:30 | Crosstalk between diverse synthetic protein degradation tags in Escherichia coli ( abstract ) |
18:30 | Fast, easy, interoperable and reusable – the cobrapy infrastructure for constraints-based analysis of metabolic flux ( abstract ) |
18:30 | Analysis of phenotypic network changes along with the sequential occurrence of driver mutations during colorectal tumorigenesis ( abstract ) |
18:30 | A distinct cutaneous microbiota profile in autoimmune bullous disease patients ( abstract ) |
18:30 | Predicting the perturbation effects in biological networks based on linear system approximation modeling ( abstract ) |
18:30 | Predicting anticancer drug responses using deep learning based on cancer cell line gene expression profiles and drug molecular fingerprints ( abstract ) |
18:30 | Identification of potential tissue-specific cancer biomarkers and development of cancer versus normal genomic classifiers ( abstract ) |
18:30 | Systems biology of multi-herbal formulations: Addressing condition-dependent prescription selection by comparing pharmacological and compound traits of related formulations ( abstract ) |
18:30 | Modeling the nutrient signaling network in Saccharomyces cerevisiae ( abstract ) |
18:30 | Compensatory interactions to stabilize multiple steady states or mitigate the effects of multiple deregulations in biological networks ( abstract ) |
18:30 | Automating cell segmentation and tracking with deep learning algorithms ( abstract ) |
18:30 | Computational Model of Melanoma Cancer ( abstract ) |
18:30 | Modeling the Interactions of Sense and Antisense Transcripts in the Mammalian Circadian Clock Network ( abstract ) |
18:30 | A Dynamic Model of Granulocyte-Monocyte Progenitor Differentiation ( abstract ) |
18:30 | Characterizing Phenotypic Heterogeneity in Small Cell Lung Cancer ( abstract ) |
18:30 | Building a Mechanistic Understanding of Cell Death or Survival Decisions in L929 Cells ( abstract ) |
18:30 | Understanding the effect of radiation on the cell cycle through mathematical modelling ( abstract ) |
18:30 | Chemotropism in yeast ( abstract ) |
18:30 | Towards a Computational Model of the Dermal Extracellular Matrix in Ageing ( abstract ) |
18:30 | Integration of a cellular signalling model with a whole-body pharmacokinetic model: Estimating cellular responses to administered interferon alpha doses in humans. ( abstract ) |
18:30 | Enhancing the Visualization of Budding Yeast Cell Cycles ( abstract ) |
View this program: with abstractssession overviewtalk overview
08:30 | Getting Things Right in a Noisy Milieu: Stochastic Models of Cell Cycle Dynamics in Budding Yeast and Bacteria ( abstract ) |
09:00 | Multi-Objective Optimization in Biology and Biomedicine ( abstract ) |
09:30 | Wednesday Coffee Break ( abstract ) |
10:00 | Newly Born Cancer Cells Escape Chemotherapeutic Drug ( abstract ) |
10:30 | Deciphering the dynamical origin of mixed population during neural stem cell development ( abstract ) |
10:50 | The dual role of microRNA in boundary formation of the spinal cord ( abstract ) |
11:10 | Exploring the inhibitory effect of membrane tension on cell polarization ( abstract ) |
11:30 | Principles that govern competition or co-existence in Rho-GTPase driven polarization ( abstract ) |
11:50 | Identifying synergistic control targets of a biological network based on a merged state transition map ( abstract ) |
10:30 | Cell size homeostasis is critical for maintaining a permissive DNA:Cytoplasm ratio ( abstract ) |
10:50 | Intercellular Coupling of the Cell Cycle and Circadian Clock in Adult Stem Cell Culture ( abstract ) |
11:10 | Dynamics of T cell memory generation inferred from single cell fate mapping in vivo ( abstract ) |
11:30 | Dilution of the cell cycle inhibitor Whi5 alone cannot account for size control in budding yeast ( abstract ) |
11:50 | Proliferating mammalian cells modulate growth rate to reduce size variability ( abstract ) |
12:10 | Incoherent inputs enhance robustness of biological oscillators ( abstract ) |
10:30 | Increasing the network communicability of a damaged brain network for rehabilitation ( abstract ) |
10:50 | The minimum dominating sets in a brain network critically determine the efficiency of local communication of the network ( abstract ) |
11:10 | Using action potential simulations to explore the possible cause-effect relationships between gain and loss of cardiac ion channel function and generation of proarrhythmic early afterdepolarizations ( abstract ) |
11:30 | Multi-level modelling for a new physiologically based interpretation of fMRI data ( abstract ) |
11:50 | A study on frequency-dependent state transition patterns in brain networks using energy landscape analysis ( abstract ) |
View this program: with abstractssession overviewtalk overview
08:30 | TBA ( abstract ) |
09:00 | Hijacking and rewiring a G1/S regulatory network in Fungi ( abstract ) |
09:30 | Thursday Morning Coffee Break ( abstract ) |
10:00 | Controlling Time in Biology ( abstract ) |
10:30 | Global Outlook on Survival of Escherichia coli Mutants during Long-Term Stationary Phase ( abstract ) |
10:50 | Modeling Methanotrophy: A genome-scale metabolic model of Methylococcus capsulatus ( abstract ) |
11:10 | High-throughput platforms for deep phenotyping ( abstract ) |
11:30 | Simulation of a Petri net Based Model of the Menthol Biosynthesis ( abstract ) |
11:50 | Computational framework for endogenous barcoding of hematopoietic stem cells in vivo ( abstract ) |
12:10 | An efficient procedure to generate plasmid for endogenous CRISPR-based knockin ( abstract ) |
10:30 | Detection of all possible signaling pathways in complex networks at steady state using Manatee invariants ( abstract ) |
10:50 | Automated pathway curation and improving metabolic model reconstruction based on phylogenetic analysis of pathway conservation ( abstract ) |
11:10 | Sequential Monte Carlo learning of Bayesian gene regulatory network models from RNA-seq data ( abstract ) |
11:30 | Emulating mechanism-based models with artificial neural networks for applications in synthetic biology and systems biology ( abstract ) |
11:50 | Data Needs Structure: Data and Model Management for Distributed Systems Biology Projects ( abstract ) |
12:10 | Finding coordinated expression motifs in RNA-seq data ( abstract ) |
10:30 | A mathematical model of iron dynamics in a mouse ( abstract ) |
10:50 | Stress-adaptive decision-making and dispersal behaviors in nematodes involve coordinated neuropeptide signaling ( abstract ) |
11:10 | A comprehensive dynamical network model of the human immune system ( abstract ) |
11:30 | A common role for stoichiometric inhibitors in cell cycle transitions ( abstract ) |
11:50 | The spatiotemporal network dynamics of acquired resistance in an engineered microecology ( abstract ) |
12:10 | Global regulation of transcription by cell size ( abstract ) |
14:00 | Keynote Talk: Cell cycle regulation by systems-level feedback controls ( abstract ) |
15:00 | Systems Biology of Mammalian Sleep/wake Cycles ( abstract ) |
15:30 | Thursday afternoon Coffee Break ( abstract ) |
16:00 | Multiphysics models of actin regulation ( abstract ) |
16:30 | Two interlinked bistable mechanisms generate a robust M phase ( abstract ) |
16:50 | A data-driven correlation measure model for epigenetic network inference in T cells ( abstract ) |
17:10 | Mechanistic interplay between ceramide and insulin resistance ( abstract ) |
17:30 | THE MULTIPLEX PHASE INTERLOCKER – A NOVEL AND ROBUST MOLECULAR DESIGN SYNCHRONIZING TRANSCRIPTIONAL CELL CYCLE DYNAMICS ( abstract ) |
17:50 | Transcriptional regulatory network inference from gene expression and chromatin accessibility measurements ( abstract ) |
18:10 | Using high-throughput genetics to test mathematical models of the yeast cell cycle ( abstract ) |
16:30 | An Adaptive Spatiotemporal Spectrum Decomposition Approach for Cellular Morphodynamic Profiling ( abstract ) |
16:50 | Structural identifiability of kinetic parameters ( abstract ) |
17:10 | Hybrid ODE/SSA Model of the Budding Yeast Cell Cycle Control Mechanism with Mutant Case Study ( abstract ) |
17:30 | Total enzyme activity constraint and homeostatic constraint impact on the best adjustable parameter sets of a kinetic model ( abstract ) |
17:50 | dwSSA++: efficient rare event probability estimation algorithm with leaping ( abstract ) |
18:10 | Clustering Biological Systems Using Correlation Matrices ( abstract ) |
16:30 | Nonequilibrium stochastic dynamics at single cell level ( abstract ) |
16:50 | Evaluating the Robustness of the Temporal Order of Anaphase Events using an Ensemble of Single Cell Models ( abstract ) |
17:10 | mRNA Production Noise in Eukaryotic Cells ( abstract ) |
17:30 | Fundamental Trade-offs between Information Flow in Single Cells and Cell Populations ( abstract ) |
We ask all posters be displayed in both poster sessions. For poster presentation, please check the poster presentation assignment page for detailed poster numbers.
View this program: with abstractssession overviewtalk overview
08:30 | COPASI – Application in research and training ( abstract ) |
09:00 | Systematic integration of models and data for yeast growth and division ( abstract ) |
09:30 | Friday Morning Coffee Break ( abstract ) |
10:00 | A model-driven experimental approach unveils the interplay between the circadian factor Period 2 and the tumor suppressor p53. ( abstract ) |
10:30 | The Undergraduate Degree in Systems Biology at Virginia Tech ( abstract ) |
10:40 | Systems biology education – When to start? ( abstract ) |
10:50 | Educational experiences in systems and synthetic biology: a mathematician’s perspective ( abstract ) |
11:00 | TBA ( abstract ) |
11:05 | TBA ( abstract ) |
11:10 | Discussion for Systems Biology Education ( abstract ) |
10:30 | Analysis and classification of differential production within toxin-antitoxin systems using large datasets ( abstract ) |
10:50 | Exploring the dynamic regulation underlying synchronous chromosome splitting in anaphase ( abstract ) |
11:10 | Analysis of a dynamic model of guard cell signaling reveals the stability of signal propagation ( abstract ) |
11:30 | Identifying frequent patterns in biochemical reaction networks using graph-mining ( abstract ) |
11:50 | Cell Cycle Control in Budding Yeast: Robustness of Model Predictions ( abstract ) |
12:10 | Evaluating the effects of measurement noise on the inference of biological regulatory networks using Modular Response Analysis ( abstract ) |
10:30 | E-cyanobacterium.org: A Web-based Platform for Systems Biology of Cyanobacteria ( abstract ) |
10:50 | Reverse-Engineering Gene regulatory Networks as Threshold Boolean Networks ( abstract ) |
11:10 | GEF-H1 regulation by microtubule dynamics unveiled by fluctuation analysis of biosensor images ( abstract ) |
11:30 | Segmenting four-dimensional fluorescence microscopic image using Convolutional Neural Network ( abstract ) |
11:50 | CrossPlan: Systematic Planning of Genetic Crosses to Validate Mathematical Models ( abstract ) |