ICSB 2017: INTERNATIONAL CONFERENCE ON SYSTEMS BIOLOGY 2017

A
Ackermann, Jörg	Detection of all possible signaling pathways in complex networks at steady state using Manatee invariants
Adamec, Jiri	Identification of potential tissue-specific cancer biomarkers and development of cancer versus normal genomic classifiers
Adames, Neil	CrossPlan: Systematic Planning of Genetic Crosses to Validate Mathematical Models Using high-throughput genetics to test mathematical models of the yeast cell cycle
Ahmadian, Mansooreh	Hybrid ODE/SSA Model of the Budding Yeast Cell Cycle Control Mechanism with Mutant Case Study
Ahuja, Shreya	Cell Cycle Model System for the Identification of Molecular Markers of Cancer
Alamoudi, Soha	Genome mining of Bacillus licheniformis strains from the Red Sea with focus on the biosynthesis of antimicrobial products
Albert, Reka	Analysis of a dynamic model of guard cell signaling reveals the stability of signal propagation Compensatory interactions to stabilize multiple steady states or mitigate the effects of multiple deregulations in biological networks
Alendal, Guttorm	Structural identifiability of kinetic parameters Mathematical modeling of regulatory interactions in the fatty acid synthesis pathway
Allgower, Frank	Reconstructing dynamic processes from high dimensional snap-shot data
Almaas, Eivind	Extended GEM of Streptomyces Coelicolor for production of secondary metabolites
Amon, Angelika	Cell size homeostasis is critical for maintaining a permissive DNA:Cytoplasm ratio
Amstein, Leonie	Detection of all possible signaling pathways in complex networks at steady state using Manatee invariants
Andreev, Victor	A Black Box Model of Patient Response to Hemodialysis Clustering Biological Systems Using Correlation Matrices
Andryka, Katarzyna	Quantitative methods for detecting origins of interferons signalling sensitivity
Angus, Steven P.	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Antebi, Yaron	Mapping BMP pairwise interactions describes how cells compute responses to BMP mixtures
Antunes, Andre	Genome mining of Bacillus licheniformis strains from the Red Sea with focus on the biosynthesis of antimicrobial products
Anyaegbunam, Uchenna	Evaluating the Robustness of the Temporal Order of Anaphase Events using an Ensemble of Single Cell Models
Arbona, Jean-Michel	Modeling the spatio-temporal replication program
Armelin, Hugo A.	SigNetSim : A web platform for building and analyzing mathematical models of molecular signaling networks
Arneodo, Alain	Modeling the spatio-temporal replication program
Audit, Benjamin	Modeling the spatio-temporal replication program
Azoitei, Mihai	GEF-H1 regulation by microtubule dynamics unveiled by fluctuation analysis of biosensor images
B
Babaei, Parizad
Bachman, John	Fundamental Trade-offs between Information Flow in Single Cells and Cell Populations
Baines, John	A distinct cutaneous microbiota profile in autoimmune bullous disease patients
Bajic, Vladimir B.	Genome mining of Bacillus licheniformis strains from the Red Sea with focus on the biosynthesis of antimicrobial products
Bales, Ben	Tutorial on StochSS: An Integrated Development Environment for Simulation and Analysis of Discrete Stochastic Biochemical Models
Ballweg, Richard	A Simple Formula for Fractional Killing
Banerjee, Anand	Mathematical modeling of an “ectopic” spindle assembly checkpoint The biochemical design of the mitotic checkpoint
Bansal, Loveleena	Quantitative Systems Pharmacology
Barah, Pankaj	Clonal evolution in glioblastoma
Barberis, Matteo	DECIPHERING CELL CYCLE ROBUSTNESS BY A MULTI-SCALE FRAMEWORK INTEGRATING CELL CYCLE AND METABOLISM IN BUDDING YEAST UNCOVERING A NETWORK MOTIF UNDERLYING A MINIMAL AUTONOMOUS OSCILLATOR OF THE BUDDING YEAST CELL CYCLE THE MULTIPLEX PHASE INTERLOCKER – A NOVEL AND ROBUST MOLECULAR DESIGN SYNCHRONIZING TRANSCRIPTIONAL CELL CYCLE DYNAMICS
Barkai, Naama	Keynote Talk: How budding yeast allocates its translation resources
Barnes, Peter	Simulating the Evolutionary Dynamics of Single-stranded RNA Virus Populations
Barone, Justin	Workshop: Multi-scale metabolic modeling and engineering
Barrera, Junior	SigNetSim : A web platform for building and analyzing mathematical models of molecular signaling networks
Barrett, Chris	TBA
Battogtokh, Dorjsuren	Modeling the Interactions of Sense and Antisense Transcripts in the Mammalian Circadian Clock Network
Baumann, William T.	Mathematical modeling of the unfolded protein response in different breast cancer cell lines
Beber, Moritz	Tutorial: Metabolic flux modeling and computer aided strain design with cobrapy, cameo and DD-DeCaF Data-Driven Design of Cell Factories and Communities Memote - A testing suite for constraint-based metabolic models Fast, easy, interoperable and reusable – the cobrapy infrastructure for constraints-based analysis of metabolic flux
Bejnood, Alborz	Workshop: Developing Tutorials For Research Tools And Methods
Bergman, Frank	COPASI Tutorial COMBINE Tutorial - Modelling and Simulation Tools in Systems Biology
Bergqvist, Niclas
Bevill, Samantha M.	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Bharadwaj, Aditya	Tutorial: GraphSpace: Interdisciplinary Collaborations in Network Biology
Bhosle, Amrisha	Co-target identification from context specific kinetic models of folate metabolism in methotrexate resistant cancers
Biegert, Greyson	Identification of potential tissue-specific cancer biomarkers and development of cancer versus normal genomic classifiers
Bland, Katherine	Investigate metabolic reprogramming of Saccharomyces cerevisiae for xylose-based fatty alcohol production via 13C metabolic flux Analysis
Blaser, Nello	Model reduction under parameter uncertainty
Bokhari, Ameerah	Genome mining of Bacillus licheniformis strains from the Red Sea with focus on the biosynthesis of antimicrobial products
Boluarte, Tatiana	Exploring the dynamic regulation underlying synchronous chromosome splitting in anaphase
Bonneau, Richard	Transcriptional regulatory network inference from gene expression and chromatin accessibility measurements
Borgqvist, Johannes	Large scale simulations of a damage accumulation model in Saccharomyces cerevisiae reveal the benefit of dynamic damage retention in unicellular ageing
Boribong, Brittany	Measuring neutrophil migration patterns using microfluidic devices and ODE modeling of the mechanistic molecular pathways
Bougouffa, Salim	Genome mining of Bacillus licheniformis strains from the Red Sea with focus on the biosynthesis of antimicrobial products
Bowman, Anthony	Global regulation of transcription by cell size
Brehme, Marc	In-silico prioritization of transporter-drug relationships from drug sensitivity screens
Breuer, Marian	The metabolic reconstruction of a minimal cell
Brinkmann, Steffen	Data Needs Structure: Data and Model Management for Distributed Systems Biology Projects
Buchholz, Veit	Dynamics of T cell memory generation inferred from single cell fate mapping in vivo
Buchler, Nick	Hijacking and rewiring a G1/S regulatory network in Fungi
Buettner, Garry R.	Systematic Approach to Understanding Selective Cancer Susceptibility to Pharmacological Ascorbate Therapy
Bugrim, Andrej	Dynamic network entropy as predictor of drug response in cancer cells.
Butzin, Nicholas	Analysis and classification of differential production within toxin-antitoxin systems using large datasets
Butzin, Nicholas C.	The spatiotemporal network dynamics of acquired resistance in an engineered microecology Crosstalk between diverse synthetic protein degradation tags in Escherichia coli
C
Cadena, Jose	Finding coordinated expression motifs in RNA-seq data
Campbell, Colin	Compensatory interactions to stabilize multiple steady states or mitigate the effects of multiple deregulations in biological networks
Cao, Yangxiaolu	Emulating mechanism-based models with artificial neural networks for applications in synthetic biology and systems biology
Cao, Young	Getting Things Right in a Noisy Milieu: Stochastic Models of Cell Cycle Dynamics in Budding Yeast and Bacteria Tuesday Morning Coffee Break Wednesday Coffee Break Thursday Morning Coffee Break Friday Morning Coffee Break Discussion for Systems Biology Education Coffee Break Tuesday Afternoon Coffee Break Thursday afternoon Coffee Break Hybrid ODE/SSA Model of the Budding Yeast Cell Cycle Control Mechanism with Mutant Case Study A Model of the Control Mechanism for the Genetic Circuit in Caulobacter Cell Cycle Welcome Enhancing the Visualization of Budding Yeast Cell Cycles
Carrero, Gustavo	Understanding the effect of radiation on the cell cycle through mathematical modelling
Carriero, Nicholas	Transcriptional regulatory network inference from gene expression and chromatin accessibility measurements
Cedersund, Gunnar	Multi-level modelling for a new physiologically based interpretation of fMRI data
Chandra, Nagasuma	Co-target identification from context specific kinetic models of folate metabolism in methotrexate resistant cancers
Chang, Hongjun	Increasing the network communicability of a damaged brain network for rehabilitation The minimum dominating sets in a brain network critically determine the efficiency of local communication of the network A study on frequency-dependent state transition patterns in brain networks using energy landscape analysis
Cheeseman, Iain	The biochemical design of the mitotic checkpoint
Chen, Chu	The biochemical design of the mitotic checkpoint
Chen, Jing	Network Dynamics and Cell Physiology Spatiotemporal model for pattern formation in phage-bacteria system
Chen, Jun-An	The dual role of microRNA in boundary formation of the spinal cord
Chen, Minghan	A Model of the Control Mechanism for the Genetic Circuit in Caulobacter Cell Cycle
Chen, Sheng	The spatiotemporal network dynamics of acquired resistance in an engineered microecology
Chen, Wei	Computational framework for endogenous barcoding of hematopoietic stem cells in vivo
Chen, Yi-Jiun	An efficient procedure to generate plasmid for endogenous CRISPR-based knockin Cells read TGF-beta temporal information through a nested relay mechanism Automating cell segmentation and tracking with deep learning algorithms
Chen, Yu Hsin	Integrated regulation of mRNA synthesis and decay decodes TNF signaling during inflammatory muscle-atrophy.
Chen, Yvonne	Engineering Next-Generation T Cells for Cancer Immunotherapy
Cheng, Zhang	Integrated regulation of mRNA synthesis and decay decodes TNF signaling during inflammatory muscle-atrophy.
Chew, Yin Hoon	Toward A Whole-Cell Model of H1 Human Embryonic Stem Cells (hESCs): A Genome-Scale Metabolic Model
Chiou, Jian-Geng	Principles that govern competition or co-existence in Rho-GTPase driven polarization
Cho, Kwang-Hyun	Increasing the network communicability of a damaged brain network for rehabilitation The minimum dominating sets in a brain network critically determine the efficiency of local communication of the network A study on frequency-dependent state transition patterns in brain networks using energy landscape analysis Identifying synergistic control targets of a biological network based on a merged state transition map Cell-type specific optimized therapy for colorectal cancer based on dynamical analysis of variant network models Analysis of phenotypic network changes along with the sequential occurrence of driver mutations during colorectal tumorigenesis Predicting anticancer drug responses using deep learning based on cancer cell line gene expression profiles and drug molecular fingerprints Predicting the perturbation effects in biological networks based on linear system approximation modeling
Cho, Yi-Li	Dynamics of T cell memory generation inferred from single cell fate mapping in vivo
Chung, Dongjun	miRNA expression shifts as an initiator event in carcinogenesis induced by Bisphenol A in human prostate cells
Ciupe, Stanca	Measuring neutrophil migration patterns using microfluidic devices and ODE modeling of the mechanistic molecular pathways
Clarke, Robert	Mathematical modeling of the unfolded protein response in different breast cancer cell lines
Collins, Kyla A.L.	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Contreras, Carlos	Understanding the effect of radiation on the cell cycle through mathematical modelling
Cross, Fred R.	Oscillatory stimuli differentiate adapting circuit topologies
Croucher, David R	Patient-specific modelling and cell-to-cell variability of the JNK-p53 activation dynamics in primary and relapsed tumours.
Crowther, Daniel	Mechanistic interplay between ceramide and insulin resistance
Cui, Jing	Enhancing the Visualization of Budding Yeast Cell Cycles
Cvijovic, Marija	Large scale simulations of a damage accumulation model in Saccharomyces cerevisiae reveal the benefit of dynamic damage retention in unicellular ageing
César-Razquin, Adrián	In-silico prioritization of transporter-drug relationships from drug sensitivity screens
D
Da Silveira, Willian	miRNA expression shifts as an initiator event in carcinogenesis induced by Bisphenol A in human prostate cells
Dagliyan, Onur	An Adaptive Spatiotemporal Spectrum Decomposition Approach for Cellular Morphodynamic Profiling
Damian, Valeriu	Quantitative Systems Pharmacology
Dannaher, Danny	Tutorial: Metabolic flux modeling and computer aided strain design with cobrapy, cameo and DD-DeCaF Data-Driven Design of Cell Factories and Communities
Danuser, Gaudenz	GEF-H1 regulation by microtubule dynamics unveiled by fluctuation analysis of biosensor images An Adaptive Spatiotemporal Spectrum Decomposition Approach for Cellular Morphodynamic Profiling
Datla, Udaya Sree	The spatiotemporal network dynamics of acquired resistance in an engineered microecology
Davidi, Dan
De Veaux, Nick	Transcriptional regulatory network inference from gene expression and chromatin accessibility measurements
de Vries, Gerda	Understanding the effect of radiation on the cell cycle through mathematical modelling
Deeds, Eric	Fundamental Trade-offs between Information Flow in Single Cells and Cell Populations
Demas, Diane M.	Mathematical modeling of the unfolded protein response in different breast cancer cell lines
Deswal, Sumit	Specificity and sensitivity of antigen sensing by the T cell receptor is enhanced by the co-receptor CD8
Deter, Heather	Analysis and classification of differential production within toxin-antitoxin systems using large datasets
Dev, Subrata	Optimal methylation noise for best chemotactic performance of E. coli
Dias, Matheus H.S.	SigNetSim : A web platform for building and analyzing mathematical models of molecular signaling networks
Dickerman, Allan	Finding coordinated expression motifs in RNA-seq data
Diehn, Maximillian	Extracting dysregulated subnetworks in the non-small cell lung carcinoma tumor microenvironment
Diener, Christian	Fast, easy, interoperable and reusable – the cobrapy infrastructure for constraints-based analysis of metabolic flux
Dovzhenok, Andrey	Intercellular Coupling of the Cell Cycle and Circadian Clock in Adult Stem Cell Culture
Doyle, Frank	Controlling Time in Biology
Drabløs, Finn	Aggregating RNA-Seq reads from multiple genes in KEGG metabolic pathways improves interpretability in gene expression pathway analysis
Drawert, Brian	Tutorial on StochSS: An Integrated Development Environment for Simulation and Analysis of Discrete Stochastic Biochemical Models
Dubey, Swati	Simulation of a Petri net Based Model of the Menthol Biosynthesis
Dwyer, Daniel	Modeling the Metabolic Response to Antibiotic Stress in Bacterial Pathogens
E
East, Michael P.	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Ebeid, Mark	Automatic Inference of Dynamic Regulatory Networks Controlling Shape And Form
Edirisinghe, Janaka	Automated pathway curation and improving metabolic model reconstruction based on phylogenetic analysis of pathway conservation
Eklund, Fredrik
Elinder, Fredrik	Multi-level modelling for a new physiologically based interpretation of fMRI data
Elowitz, Michael	Mapping BMP pairwise interactions describes how cells compute responses to BMP mixtures
Elston, Timothy	Principles that govern competition or co-existence in Rho-GTPase driven polarization Mathematical models for cell polarization and gradient sensing
Elston, Timothy Charles	Stochastic model of HPV early promoter predicts bursts like pattern of gene expression Chemotropism in yeast
Engström, Maria	Multi-level modelling for a new physiologically based interpretation of fMRI data
Erdem, Cemal	Insulin receptor substrate (IRS) dictates differential responses to insulin and insulin-like growth factor I (IGF1) stimulation
Erudaitius, Dieanira	Systematic Approach to Understanding Selective Cancer Susceptibility to Pharmacological Ascorbate Therapy
Essack, Magbubah	Genome mining of Bacillus licheniformis strains from the Red Sea with focus on the biosynthesis of antimicrobial products
Eyerich, Stefanie	Multi-omics analysis of T helper 22 cells
F
Fallahi, Shirin	Model reduction under parameter uncertainty Mathematical modeling of regulatory interactions in the fatty acid synthesis pathway
Fan, Kai	Emulating mechanism-based models with artificial neural networks for applications in synthetic biology and systems biology
Faraji, Mojdeh	Compartmentalization of lignin biosynthesis using either phenylalanine or tyrosine in Brachypodium distachyon
Faria, José	Automated pathway curation and improving metabolic model reconstruction based on phylogenetic analysis of pathway conservation
Feng, Xueyang	A Synthetic Biosensor to Determine Peroxisomal Acetyl-CoA Concentration for Compartmentalized Metabolic Engineering. Investigate metabolic reprogramming of Saccharomyces cerevisiae for xylose-based fatty alcohol production via 13C metabolic flux Analysis Systematic Optimization of Protein Secretory Pathways in Saccharomyces cerevisiae to Increase Expression of Hepatitis B Small Antigen
Fernandez Garcia, Geysson Javier	Integrated regulation of mRNA synthesis and decay decodes TNF signaling during inflammatory muscle-atrophy.
Fey, Dirk	Patient-specific modelling and cell-to-cell variability of the JNK-p53 activation dynamics in primary and relapsed tumours. Evaluating the effects of measurement noise on the inference of biological regulatory networks using Modular Response Analysis
Feyerabend, Thorsten B.	Computational framework for endogenous barcoding of hematopoietic stem cells in vivo
Fiume, Giuseppe	In-silico prioritization of transporter-drug relationships from drug sensitivity screens
Flick, Hunter	Systematic Optimization of Protein Secretory Pathways in Saccharomyces cerevisiae to Increase Expression of Hepatitis B Small Antigen
Flossdorf, Michael	Dynamics of T cell memory generation inferred from single cell fate mapping in vivo
Fontan, Adrienne	The biochemical design of the mitotic checkpoint
Forsgren, Mikael
Franzese, Nicholas
Freeman, Michael	Comprehensive Proteogenomic Characterization of Human Prostate Cancer Cells Reveals Many Missing Proteins and Novel Protein Variants
Frøysa, Håvard G.	Structural identifiability of kinetic parameters Model reduction under parameter uncertainty
Funahashi, Akira	COMBINE Tutorial - Modelling and Simulation Tools in Systems Biology Segmenting four-dimensional fluorescence microscopic image using Convolutional Neural Network
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Gadkar, Kapil	Quantitative Systems Pharmacology
Galkina, Svetlana	Data-Driven Design of Cell Factories and Communities Fast, easy, interoperable and reusable – the cobrapy infrastructure for constraints-based analysis of metabolic flux
Gan, Xiao	Analysis of a dynamic model of guard cell signaling reveals the stability of signal propagation
Ge, Hao	Nonequilibrium stochastic dynamics at single cell level
Gentles, Andrew	Extracting dysregulated subnetworks in the non-small cell lung carcinoma tumor microenvironment
George, Jason	Quantifying epithelial-mesenchymal plasticity in cancer and its association with patient survival
Gernaey, Krist	Modeling Methanotrophy: A genome-scale metabolic model of Methylococcus capsulatus
Gevaert, Olivier
Ghaemi, Zhaleh	mRNA Production Noise in Eukaryotic Cells
Ghose, Debraj	Chemotropism in yeast
Giaretta, Alberto	Stochastic model of HPV early promoter predicts bursts like pattern of gene expression
Gillespie, Brenda	Clustering Biological Systems Using Correlation Matrices
Girardi, Enrico	In-silico prioritization of transporter-drug relationships from drug sensitivity screens
Glass, John I.	The metabolic reconstruction of a minimal cell
Glen, William B	miRNA expression shifts as an initiator event in carcinogenesis induced by Bisphenol A in human prostate cells
Gläser, Regine	A distinct cutaneous microbiota profile in autoimmune bullous disease patients
Goble, Carole	Data Needs Structure: Data and Model Management for Distributed Systems Biology Projects
Goksøyr, Anders	Mathematical modeling of regulatory interactions in the fatty acid synthesis pathway
Goldar, Arach	Modeling the spatio-temporal replication program
Goldberg, Arthur	Toward A Whole-Cell Model of H1 Human Embryonic Stem Cells (hESCs): A Genome-Scale Metabolic Model
Golebiewski, Martin	COMBINE Tutorial - Modelling and Simulation Tools in Systems Biology Data Needs Structure: Data and Model Management for Distributed Systems Biology Projects Kinetics data information retrieval from the literature as public service
Golia, Saahil	Exploring the dynamic regulation underlying synchronous chromosome splitting in anaphase
Gomez, Shawn M.	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Gong, Jeong-Ryeol	Analysis of phenotypic network changes along with the sequential occurrence of driver mutations during colorectal tumorigenesis
Gong, Jeong-Ryeol	Cell-type specific optimized therapy for colorectal cancer based on dynamical analysis of variant network models
Gonzalez, Floricel	Spatiotemporal model for pattern formation in phage-bacteria system
Goulet, Daniel R.	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Graves, Lee M.	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Grene, Ruth	CoReg: Identification of co-regulators in genome scale transcription regulatory
Groce, Adam
Gu, Tian	Automated pathway curation and improving metabolic model reconstruction based on phylogenetic analysis of pathway conservation
Guan, Ye	Incoherent inputs enhance robustness of biological oscillators
Guenther, Matthias	Specificity and sensitivity of antigen sensing by the T cell receptor is enhanced by the co-receptor CD8
Guimarães, Amanda S.	SigNetSim : A web platform for building and analyzing mathematical models of molecular signaling networks
Guo, Weihua	Investigate metabolic reprogramming of Saccharomyces cerevisiae for xylose-based fatty alcohol production via 13C metabolic flux Analysis
Gustafsson, Mika
Gutierrz, Jayson	Integrated regulation of mRNA synthesis and decay decodes TNF signaling during inflammatory muscle-atrophy.
H
Hafner, Marc	Workshop on Drug Response Measurement and Analysis
Hahn, Klaus	GEF-H1 regulation by microtubule dynamics unveiled by fluctuation analysis of biosensor images An Adaptive Spatiotemporal Spectrum Decomposition Approach for Cellular Morphodynamic Profiling
Hajnal, Matěj	E-cyanobacterium.org: A Web-based Platform for Systems Biology of Cyanobacteria
Halasz, Melinda	Patient-specific modelling and cell-to-cell variability of the JNK-p53 activation dynamics in primary and relapsed tumours.
Hall, Claire R.	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Hall, Jason A.	Transcriptional regulatory network inference from gene expression and chromatin accessibility measurements
Han, Younghyun	Predicting anticancer drug responses using deep learning based on cancer cell line gene expression profiles and drug molecular fingerprints
Hanash, Samir	Quantifying epithelial-mesenchymal plasticity in cancer and its association with patient survival
Hanazaki, Kazuhiro	Systems Biology of Herbal Medicine: Pharmacological property of complex herbal formulation
Hardiman, Gary	miRNA expression shifts as an initiator event in carcinogenesis induced by Bisphenol A in human prostate cells
Hartman, John	A Black Box Model of Patient Response to Hemodialysis
Hauf, Silke	Exploring the dynamic regulation underlying synchronous chromosome splitting in anaphase Evaluating the Robustness of the Temporal Order of Anaphase Events using an Ensemble of Single Cell Models
Hazard, E. Starr	miRNA expression shifts as an initiator event in carcinogenesis induced by Bisphenol A in human prostate cells
He, Wei	Mathematical modeling of the unfolded protein response in different breast cancer cell lines
Heath, Lenwood	CoReg: Identification of co-regulators in genome scale transcription regulatory
Hegazy, Ahmed	A data-driven correlation measure model for epigenetic network inference in T cells
Heldt, Frank S.	Dilution of the cell cycle inhibitor Whi5 alone cannot account for size control in budding yeast
Helikar, Tomas	A comprehensive dynamical network model of the human immune system Identification of potential tissue-specific cancer biomarkers and development of cancer versus normal genomic classifiers
Helikar, Tomas	TBA Workshop: 4th International Hands-on Tutorial on Logical Modeling​​​​​​​ Systems modeling of interplay among extracellular cytokines regulating phenotypic plasticity of CD4+ T-cell differentiation
Hellander, Andreas	Tutorial on StochSS: An Integrated Development Environment for Simulation and Analysis of Discrete Stochastic Biochemical Models
Henkel, Ron	Identifying frequent patterns in biochemical reaction networks using graph-mining
Henkel, Ron	COMBINE Tutorial - Modelling and Simulation Tools in Systems Biology
Henn, Lisa	Clustering Biological Systems Using Correlation Matrices
Henry, Christopher	Automated pathway curation and improving metabolic model reconstruction based on phylogenetic analysis of pathway conservation
Herath, Samantha	Automatic Inference of Dynamic Regulatory Networks Controlling Shape And Form
Herrgård, Markus	Modeling Methanotrophy: A genome-scale metabolic model of Methylococcus capsulatus Data-Driven Design of Cell Factories and Communities
Hiroi, Noriko	COMBINE Tutorial - Modelling and Simulation Tools in Systems Biology
Hiroi, Noriko	Segmenting four-dimensional fluorescence microscopic image using Convolutional Neural Network
Hirt, Heribert	Genome mining of Bacillus licheniformis strains from the Red Sea with focus on the biosynthesis of antimicrobial products
Hochegger, Helfrid	Two interlinked bistable mechanisms generate a robust M phase
Hoeschele, Ina	Cell Cycle Model System for the Identification of Molecular Markers of Cancer
Hofer, Thomas	Newly Born Cancer Cells Escape Chemotherapeutic Drug Systems biology education – When to start? A data-driven correlation measure model for epigenetic network inference in T cells Clonal evolution in glioblastoma Specificity and sensitivity of antigen sensing by the T cell receptor is enhanced by the co-receptor CD8
Hoffmann, Alexander	Identifying non-genetic origins of cell-to-cell variability in B-lymphocyte proliferation through systems biology Integrated regulation of mRNA synthesis and decay decodes TNF signaling during inflammatory muscle-atrophy.
Hong, Christian	Intercellular Coupling of the Cell Cycle and Circadian Clock in Adult Stem Cell Culture
Hong, Tian	The dual role of microRNA in boundary formation of the spinal cord
Hoops, Stefan	COPASI Tutorial COMBINE Tutorial - Modelling and Simulation Tools in Systems Biology
Hopkins, Michael	A common role for stoichiometric inhibitors in cell cycle transitions
Hrabec, Jakub	E-cyanobacterium.org: A Web-based Platform for Systems Biology of Cyanobacteria
Huang, Andrew	Systematic Approach to Understanding Selective Cancer Susceptibility to Pharmacological Ascorbate Therapy
Huang, Bo	Coupled feed-forward and feedback of ATM/p53/Mdm2/Wip1 control cell type-dependent bimodal p53 dynamics and cell fate response
Huff, Matthew	miRNA expression shifts as an initiator event in carcinogenesis induced by Bisphenol A in human prostate cells
Hughs, Shannon	NIH/NCI Talk
Hui, Angela	Extracting dysregulated subnetworks in the non-small cell lung carcinoma tumor microenvironment
Hutchison Iii., Clyde A.	The metabolic reconstruction of a minimal cell
Huttanus, Bert	A Synthetic Biosensor to Determine Peroxisomal Acetyl-CoA Concentration for Compartmentalized Metabolic Engineering.
Hwang, Chae Young	Cell-type specific optimized therapy for colorectal cancer based on dynamical analysis of variant network models
Hyrien, Olivier	Modeling the spatio-temporal replication program
Höfer, Thomas	Computational framework for endogenous barcoding of hematopoietic stem cells in vivo
Höfer, Thomas	Dynamics of T cell memory generation inferred from single cell fate mapping in vivo
I
Ibrahim, Saleh	A distinct cutaneous microbiota profile in autoimmune bullous disease patients
Ildefonso, Geena	Building a Mechanistic Understanding of Cell Death or Survival Decisions in L929 Cells
Ingalls, Brian	Educational experiences in systems and synthetic biology: a mathematician’s perspective Predictive modelling of a batch filter mating process
Iqbal, Nurhezreen	Global Outlook on Survival of Escherichia coli Mutants during Long-Term Stationary Phase
Irvin, Michael	Building a Mechanistic Understanding of Cell Death or Survival Decisions in L929 Cells
Ivanov, Oleksandr	UNCOVERING A NETWORK MOTIF UNDERLYING A MINIMAL AUTONOMOUS OSCILLATOR OF THE BUDDING YEAST CELL CYCLE
J
Jalihal, Amogh	Modeling the nutrient signaling network in Saccharomyces cerevisiae
Janes, Kevin	Stochastic frequency matching of incompletely penetrant onco-phenotypes
Jang, So-Yeong	Predicting the perturbation effects in biological networks based on linear system approximation modeling
Jarrah, Abdul Salam	Reverse-Engineering Gene regulatory Networks as Threshold Boolean Networks
Jefferson, David	Simulating the Evolutionary Dynamics of Single-stranded RNA Virus Populations
Jeffryes, James	Automated pathway curation and improving metabolic model reconstruction based on phylogenetic analysis of pathway conservation
Jensen, Roderick	Analysis and classification of differential production within toxin-antitoxin systems using large datasets
Jetka, Tomasz	Quantitative methods for detecting origins of interferons signalling sensitivity
Ji, Boyang
Ji, Brian	Ecological Dynamics of Gut Microbiota
Jia, Dongya	Quantifying epithelial-mesenchymal plasticity in cancer and its association with patient survival
Jia, Gengjie	Computational Model of Melanoma Cancer
Joglekar, Ajit	Mathematical modeling of an “ectopic” spindle assembly checkpoint The biochemical design of the mitotic checkpoint
Johnson, Gary L.	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Jolly, Mohit Kumar	Quantifying epithelial-mesenchymal plasticity in cancer and its association with patient survival
Jones, Caroline N.	The spatiotemporal network dynamics of acquired resistance in an engineered microecology Heparin-based hydrogel as a biomimetic 3D matrix for solid-phase growth factor presentation and cultivation of breast cancer cells Measuring neutrophil migration patterns using microfluidic devices and ODE modeling of the mechanistic molecular pathways
Joseph, Stephy	Two interlinked bistable mechanisms generate a robust M phase
Joshi, Sheela	Simulation of a Petri net Based Model of the Menthol Biosynthesis
K
Kadelka, Sarah	Measuring neutrophil migration patterns using microfluidic devices and ODE modeling of the mechanistic molecular pathways
Kahramanoğulları, Ozan	Mechanistic interplay between ceramide and insulin resistance
Kalra, Priyata	Integration of a cellular signalling model with a whole-body pharmacokinetic model: Estimating cellular responses to administered interferon alpha doses in humans.
Kamenz, Julia	Exploring the dynamic regulation underlying synchronous chromosome splitting in anaphase
Kang, Uiryong	Increasing the network communicability of a damaged brain network for rehabilitation The minimum dominating sets in a brain network critically determine the efficiency of local communication of the network A study on frequency-dependent state transition patterns in brain networks using energy landscape analysis
Kanno, Hitomi	Systems Biology of Herbal Medicine: Pharmacological property of complex herbal formulation Systems biology of multi-herbal formulations: Addressing condition-dependent prescription selection by comparing pharmacological and compound traits of related formulations
Kar, Sandip	Deciphering the dynamical origin of mixed population during neural stem cell development
Karlsson, Markus
Karr, Jonathan	Toward A Whole-Cell Model of H1 Human Embryonic Stem Cells (hESCs): A Genome-Scale Metabolic Model KineticDatanator: Tools for Aggregating Data for Biochemical Modeling
Katsov, Alexander Y.	Oscillatory stimuli differentiate adapting circuit topologies
Kaur, Sandeep	A strategy for modelling and visualising phosphoproteomic datasets
Kern, David	The biochemical design of the mitotic checkpoint
Kholodenko, Boris N	Patient-specific modelling and cell-to-cell variability of the JNK-p53 activation dynamics in primary and relapsed tumours. Evaluating the effects of measurement noise on the inference of biological regulatory networks using Modular Response Analysis
Kim, Dongsan	Predicting the perturbation effects in biological networks based on linear system approximation modeling
Kim, Juntae	Predicting anticancer drug responses using deep learning based on cancer cell line gene expression profiles and drug molecular fingerprints
Kim, Yunseong	Identifying synergistic control targets of a biological network based on a merged state transition map Predicting the perturbation effects in biological networks based on linear system approximation modeling
King, Zachary	Tutorial: Metabolic flux modeling and computer aided strain design with cobrapy, cameo and DD-DeCaF
Kirschner, Marc	Proliferating mammalian cells modulate growth rate to reduce size variability
Kitano, Hiroaki	Systems Biology of Herbal Medicine: Pharmacological property of complex herbal formulation Systems biology of multi-herbal formulations: Addressing condition-dependent prescription selection by comparing pharmacological and compound traits of related formulations
Klahn, Brian	COPASI Tutorial
Kleppe, Rune	Mathematical modeling of regulatory interactions in the fatty acid synthesis pathway
Klipp, Edda	Systematic integration of models and data for yeast growth and division TBA
Klumpe, Heidi	Mapping BMP pairwise interactions describes how cells compute responses to BMP mixtures
Kobayashi, Tetsuya	Segmenting four-dimensional fluorescence microscopic image using Convolutional Neural Network
Koch, Ina	Detection of all possible signaling pathways in complex networks at steady state using Manatee invariants
Koerber, Verena	Clonal evolution in glioblastoma
Kojima, Shihoko	Modeling the Interactions of Sense and Antisense Transcripts in the Mammalian Circadian Clock Network
Kolch, Walter	Patient-specific modelling and cell-to-cell variability of the JNK-p53 activation dynamics in primary and relapsed tumours.
Komasilovs, Vitalijs	Total enzyme activity constraint and homeostatic constraint impact on the best adjustable parameter sets of a kinetic model
Kommer, Christoph	A data-driven correlation measure model for epigenetic network inference in T cells
Komokata, Nagisa	Systems Biology of Herbal Medicine: Pharmacological property of complex herbal formulation
Komorowski, Michał	Quantitative methods for detecting origins of interferons signalling sensitivity
Konecka, Justyna	In-silico prioritization of transporter-drug relationships from drug sensitivity screens
Korkut, Anil	Phosphoproteomics-Guided Discovery of Effective Combination Therapies in Cancer
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Küpfer, Lars	Integration of a cellular signalling model with a whole-body pharmacokinetic model: Estimating cellular responses to administered interferon alpha doses in humans.
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Lafaundex, Diane	Integrated regulation of mRNA synthesis and decay decodes TNF signaling during inflammatory muscle-atrophy.
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Law, Jeffrey N.	Tutorial: GraphSpace: Interdisciplinary Collaborations in Network Biology Computational Construction of Toxicant Signaling Networks
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Lee, Byeongwook	Increasing the network communicability of a damaged brain network for rehabilitation The minimum dominating sets in a brain network critically determine the efficiency of local communication of the network A study on frequency-dependent state transition patterns in brain networks using energy landscape analysis
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Levchenko, Andre	Systems analysis of invasive cancer spread: from the bench to bedside
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Lew, Daniel	Principles that govern competition or co-existence in Rho-GTPase driven polarization Chemotropism in yeast
Lewis, Bryan	Mathematical and computational foundations of infectious disease epidemiology
Lezon, Timothy R.	Insulin receptor substrate (IRS) dictates differential responses to insulin and insulin-like growth factor I (IGF1) stimulation
Li, Chung-Jung	The dual role of microRNA in boundary formation of the spinal cord
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Li, Liwu	Measuring neutrophil migration patterns using microfluidic devices and ODE modeling of the mechanistic molecular pathways A Dynamic Model of Granulocyte-Monocyte Progenitor Differentiation
Li, Song	CoReg: Identification of co-regulators in genome scale transcription regulatory
Li, Xiaochu	Spatiotemporal model for pattern formation in phage-bacteria system
Li, Xubin	Phosphoproteomics-Guided Discovery of Effective Combination Therapies in Cancer
Li, Yang	Coupled feed-forward and feedback of ATM/p53/Mdm2/Wip1 control cell type-dependent bimodal p53 dynamics and cell fate response
Li, Zhengda	Incoherent inputs enhance robustness of biological oscillators
Lichter, Peter	Clonal evolution in glioblastoma
Liebermeister, Wolfram	UNCOVERING A NETWORK MOTIF UNDERLYING A MINIMAL AUTONOMOUS OSCILLATOR OF THE BUDDING YEAST CELL CYCLE
Lieven, Christian	Modeling Methanotrophy: A genome-scale metabolic model of Methylococcus capsulatus Memote - A testing suite for constraint-based metabolic models
Lim, Sookkyung	Intercellular Coupling of the Cell Cycle and Circadian Clock in Adult Stem Cell Culture
Linke, Christian	THE MULTIPLEX PHASE INTERLOCKER – A NOVEL AND ROBUST MOLECULAR DESIGN SYNCHRONIZING TRANSCRIPTIONAL CELL CYCLE DYNAMICS
Littman, Dan R.	Transcriptional regulatory network inference from gene expression and chromatin accessibility measurements
Liu, Feng	Exploring the inhibitory effect of membrane tension on cell polarization
Liu, Feng	Coupled feed-forward and feedback of ATM/p53/Mdm2/Wip1 control cell type-dependent bimodal p53 dynamics and cell fate response
Liu, Filipe	Automated pathway curation and improving metabolic model reconstruction based on phylogenetic analysis of pathway conservation
Liu, Gang	A Black Box Model of Patient Response to Hemodialysis Clustering Biological Systems Using Correlation Matrices
Liu, Sen	A Dynamic KaiA-KaiC Interaction Maintains the Oscillation of the KaiABC Circadian Clock
Liu, Xili	Proliferating mammalian cells modulate growth rate to reduce size variability
Liu, Youhua	The Transition from Acute Kidney Injury to Chronic Kidney Diseases Comes from Evolutionary Compromise
Lobo, Daniel	Automatic Inference of Dynamic Regulatory Networks Controlling Shape And Form
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Lundengård, Karin	Multi-level modelling for a new physiologically based interpretation of fMRI data
Lunstone, Reece	Dilution of the cell cycle inhibitor Whi5 alone cannot account for size control in budding yeast
Luo, Nan	Emulating mechanism-based models with artificial neural networks for applications in synthetic biology and systems biology
Luthey-Schulten, Zan	The metabolic reconstruction of a minimal cell mRNA Production Noise in Eukaryotic Cells
Löhning, Max	A data-driven correlation measure model for epigenetic network inference in T cells
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Lövfors, William
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Ma, Xiao	An Adaptive Spatiotemporal Spectrum Decomposition Approach for Cellular Morphodynamic Profiling
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Malwade, Akshay	Predictive modelling of a batch filter mating process
Mansouri, Nahal	Oscillatory stimuli differentiate adapting circuit topologies
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Mills, Caitlin E	Workshop on Drug Response Measurement and Analysis
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Nabeshima, Shigeki	Systems Biology of Herbal Medicine: Pharmacological property of complex herbal formulation Systems biology of multi-herbal formulations: Addressing condition-dependent prescription selection by comparing pharmacological and compound traits of related formulations
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O'Donoghue, Sean	A strategy for modelling and visualising phosphoproteomic datasets
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Paek, Andrew	A Simple Formula for Fractional Killing
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Posas, Francesc	THE MULTIPLEX PHASE INTERLOCKER – A NOVEL AND ROBUST MOLECULAR DESIGN SYNCHRONIZING TRANSCRIPTIONAL CELL CYCLE DYNAMICS
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Qian, Hong	Nonequilibrium stochastic dynamics at single cell level
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Radde, Nicole Erika	Evaluating the effects of measurement noise on the inference of biological regulatory networks using Modular Response Analysis
Radlwimmer, Bernhard	Clonal evolution in glioblastoma
Rahi, Sahand Jamal	Oscillatory stimuli differentiate adapting circuit topologies
Raichur, Suryaprakash	Mechanistic interplay between ceramide and insulin resistance
Ramanujan, Saroja	Quantitative Systems Pharmacology
Rata, Scott	Two interlinked bistable mechanisms generate a robust M phase
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Reis, Marcelo S.	SigNetSim : A web platform for building and analyzing mathematical models of molecular signaling networks
Renaud, Ludivine	miRNA expression shifts as an initiator event in carcinogenesis induced by Bisphenol A in human prostate cells
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Rey, Maja	Kinetics data information retrieval from the literature as public service
Rise, Kjersti	Aggregating RNA-Seq reads from multiple genes in KEGG metabolic pathways improves interpretability in gene expression pathway analysis
Ritz, Anna
Robinson, Bruce	A Black Box Model of Patient Response to Hemodialysis
Rocha, Isabel	Automated pathway curation and improving metabolic model reconstruction based on phylogenetic analysis of pathway conservation
Rodewald, Hans-Reimer	Computational framework for endogenous barcoding of hematopoietic stem cells in vivo
Rodgers, Victor G. J.	Systematic Approach to Understanding Selective Cancer Susceptibility to Pharmacological Ascorbate Therapy
Roessler, Jens	Computational framework for endogenous barcoding of hematopoietic stem cells in vivo
Rogers, Alicia	Stress-adaptive decision-making and dispersal behaviors in nematodes involve coordinated neuropeptide signaling
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Roudo, Philippe	GEF-H1 regulation by microtubule dynamics unveiled by fluctuation analysis of biosensor images
Roy, Koushik	Identifying non-genetic origins of cell-to-cell variability in B-lymphocyte proliferation through systems biology
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Saad, Maged M	Genome mining of Bacillus licheniformis strains from the Red Sea with focus on the biosynthesis of antimicrobial products
Sadat-Mousavi, Peivand	Predictive modelling of a batch filter mating process
Saez-Rodriguez, Julio	Workshop: 4th International Hands-on Tutorial on Logical Modeling​​​​​​​ Dynamic logic models complement machine learning to improve cancer treatment In-silico prioritization of transporter-drug relationships from drug sensitivity screens
Sahle, Sven	COPASI Tutorial COMBINE Tutorial - Modelling and Simulation Tools in Systems Biology
Sakurai, Nozomu	Systems biology of multi-herbal formulations: Addressing condition-dependent prescription selection by comparing pharmacological and compound traits of related formulations
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Santra, Tapesh	Evaluating the effects of measurement noise on the inference of biological regulatory networks using Modular Response Analysis
Sauer, Sascha	Computational framework for endogenous barcoding of hematopoietic stem cells in vivo
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Schamel, Wolfgang	Specificity and sensitivity of antigen sensing by the T cell receptor is enhanced by the co-receptor CD8
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Scheidel, Jennifer	Detection of all possible signaling pathways in complex networks at steady state using Manatee invariants
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Schmidt, Enno	A distinct cutaneous microbiota profile in autoimmune bullous disease patients
Schneider, Hans-Christoph	Mechanistic interplay between ceramide and insulin resistance
Sciaky, Noah	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Seaver, Samuel	Automated pathway curation and improving metabolic model reconstruction based on phylogenetic analysis of pathway conservation
Sekhri, Palak	The biochemical design of the mitotic checkpoint
Selvaggio, Gianluca	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
Sen, Supriya	Integrated regulation of mRNA synthesis and decay decodes TNF signaling during inflammatory muscle-atrophy.
Sengupta, Dola	Deciphering the dynamical origin of mixed population during neural stem cell development
Sevin, Daniel	Nontargeted in vitro metabolomics identifies wide-spread enyzme promiscuity in Escherichia coli
Shahrezaei, Vahid	Global regulation of transcription by cell size
Shajahan-Haq, Ayesha N.	Mathematical modeling of the unfolded protein response in different breast cancer cell lines
Shanley, Daryl	Towards a Computational Model of the Dermal Extracellular Matrix in Ageing
Sheng, Jiayuan	A Synthetic Biosensor to Determine Peroxisomal Acetyl-CoA Concentration for Compartmentalized Metabolic Engineering. Investigate metabolic reprogramming of Saccharomyces cerevisiae for xylose-based fatty alcohol production via 13C metabolic flux Analysis Systematic Optimization of Protein Secretory Pathways in Saccharomyces cerevisiae to Increase Expression of Hepatitis B Small Antigen
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Shih, Pei-Yin	Stress-adaptive decision-making and dispersal behaviors in nematodes involve coordinated neuropeptide signaling
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Shimony, Joshua	Clustering Biological Systems Using Correlation Matrices
Shin, Dongkwan	Analysis of phenotypic network changes along with the sequential occurrence of driver mutations during colorectal tumorigenesis
Shoultz, Isaac W.	The spatiotemporal network dynamics of acquired resistance in an engineered microecology
Shrager, Joe	Extracting dysregulated subnetworks in the non-small cell lung carcinoma tumor microenvironment
Siegal, Mark	Overrepresentation of feed forward loops can be driven by simple signal recognition, without the need for noise filtering
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Skaug, Hans J.	Structural identifiability of kinetic parameters Mathematical modeling of regulatory interactions in the fatty acid synthesis pathway
Smith, Adam	Fundamental Trade-offs between Information Flow in Single Cells and Cell Populations
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Sobie, Eric	Quantitative Systems Pharmacology
Song, Qi	CoReg: Identification of co-regulators in genome scale transcription regulatory
Sonnenschein, Nikolaus	Data-Driven Design of Cell Factories and Communities
Sonnenschein, Nikolaus	Tutorial: Metabolic flux modeling and computer aided strain design with cobrapy, cameo and DD-DeCaF Modeling Methanotrophy: A genome-scale metabolic model of Methylococcus capsulatus Memote - A testing suite for constraint-based metabolic models Fast, easy, interoperable and reusable – the cobrapy infrastructure for constraints-based analysis of metabolic flux
Sontag, Eduardo D.	Oscillatory stimuli differentiate adapting circuit topologies
Sorger, Peter	Fundamental Trade-offs between Information Flow in Single Cells and Cell Populations
Sprecherq, Eli	A distinct cutaneous microbiota profile in autoimmune bullous disease patients
St. John, Peter	Fast, easy, interoperable and reusable – the cobrapy infrastructure for constraints-based analysis of metabolic flux
Stalidzans, Egils	Total enzyme activity constraint and homeostatic constraint impact on the best adjustable parameter sets of a kinetic model Genome scale metabolic model of Arabidopsis thalina for isoprenoid production
Stanford, Natalie	Data Needs Structure: Data and Model Management for Distributed Systems Biology Projects
Stefan, Anca	A Black Box Model of Patient Response to Hemodialysis Clustering Biological Systems Using Correlation Matrices
Sten, Sebastian	Multi-level modelling for a new physiologically based interpretation of fMRI data
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Stuhlmiller, Timothy J.	Defining subtype taxonomies and functional architectures of the breast cancer kinome
Stöhr, Daniela	Reconstructing dynamic processes from high dimensional snap-shot data
Subramanian, Kartik	Workshop on Drug Response Measurement and Analysis
Suderman, Ryan	Fundamental Trade-offs between Information Flow in Single Cells and Cell Populations
Sulheim, Snorre	Extended GEM of Streptomyces Coelicolor for production of secondary metabolites
Sun, Xi-Ming	Global regulation of transcription by cell size
Superti-Furga, Giulio	In-silico prioritization of transporter-drug relationships from drug sensitivity screens
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Taft, David A	An efficient procedure to generate plasmid for endogenous CRISPR-based knockin
Tauber, Uwe C.	The spatiotemporal network dynamics of acquired resistance in an engineered microecology
Taylor, D. Lansing	Insulin receptor substrate (IRS) dictates differential responses to insulin and insulin-like growth factor I (IGF1) stimulation
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The Team Of Jae Kim And Carla Finkielstein,	A model-driven experimental approach unveils the interplay between the circadian factor Period 2 and the tumor suppressor p53.
Theis, Fabian J.	Multi-omics analysis of T helper 22 cells
Thomaseth, Caterina	Evaluating the effects of measurement noise on the inference of biological regulatory networks using Modular Response Analysis
Thorne, Tom	Sequential Monte Carlo learning of Bayesian gene regulatory network models from RNA-seq data
Tian, Xiao-Jun	The Transition from Acute Kidney Injury to Chronic Kidney Diseases Comes from Evolutionary Compromise An efficient procedure to generate plasmid for endogenous CRISPR-based knockin Cells read TGF-beta temporal information through a nested relay mechanism
Todd, Robert	Systems modeling of interplay among extracellular cytokines regulating phenotypic plasticity of CD4+ T-cell differentiation
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Tognetti, Silvia	THE MULTIPLEX PHASE INTERLOCKER – A NOVEL AND ROBUST MOLECULAR DESIGN SYNCHRONIZING TRANSCRIPTIONAL CELL CYCLE DYNAMICS
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Tripathi, Satyendra	Quantifying epithelial-mesenchymal plasticity in cancer and its association with patient survival
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Tsaneva-Atanasova, Krasimira	Oscillatory stimuli differentiate adapting circuit topologies
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Tuffery, Laura	Patient-specific modelling and cell-to-cell variability of the JNK-p53 activation dynamics in primary and relapsed tumours.
Tyson, John	Getting Things Right in a Noisy Milieu: Stochastic Models of Cell Cycle Dynamics in Budding Yeast and Bacteria The Undergraduate Degree in Systems Biology at Virginia Tech A common role for stoichiometric inhibitors in cell cycle transitions Dilution of the cell cycle inhibitor Whi5 alone cannot account for size control in budding yeast CrossPlan: Systematic Planning of Genetic Crosses to Validate Mathematical Models Cell Cycle Control in Budding Yeast: Robustness of Model Predictions Network Dynamics and Cell Physiology Hybrid ODE/SSA Model of the Budding Yeast Cell Cycle Control Mechanism with Mutant Case Study Mathematical modeling of an “ectopic” spindle assembly checkpoint The biochemical design of the mitotic checkpoint Using high-throughput genetics to test mathematical models of the yeast cell cycle Computational Model of Melanoma Cancer A Model of the Control Mechanism for the Genetic Circuit in Caulobacter Cell Cycle Modeling the nutrient signaling network in Saccharomyces cerevisiae A Dynamic Model of Granulocyte-Monocyte Progenitor Differentiation Modeling the Interactions of Sense and Antisense Transcripts in the Mammalian Circadian Clock Network
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Ueda, Hiroki R.	Systems Biology of Mammalian Sleep/wake Cycles
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van der Zee, Lucas	DECIPHERING CELL CYCLE ROBUSTNESS BY A MULTI-SCALE FRAMEWORK INTEGRATING CELL CYCLE AND METABOLISM IN BUDDING YEAST
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