Network topology and parameter estimation: from experimental design methods to gene regulatory network kinetics using a community based approach

Maximizing the Information Content of Experiments in Systems Biology

(2013) Juliane Liepe et al.   PLoS Computational Biology

A Whole-Cell Computational Model Predicts Phenotype from Genotype

(2012) Jonathan R. Karr et al.   CELL

New algorithms for budgeted learning

(2012) Kun Deng et al.   MACHINE LEARNING

Genetic programs constructed from layered logic gates in single cells

(2012) Tae Seok Moon et al.   NATURE

Wisdom of crowds for robust gene network inference

(2012) Daniel Marbach et al.   NATURE METHODS

Experimental Design for Parameter Estimation of Gene Regulatory Networks

(2012) Bernhard Steiert et al.   PLoS One

Identifiability and observability analysis for experimental design in nonlinear dynamical models

(2011) A. Raue et al.   CHAOS

Mass spectrometry-based proteomics for systems biology

(2011) Eduard Sabidó et al.   CURRENT OPINION IN BIOTECHNOLOGY

Stochastic Pulse Regulation in Bacterial Stress Response

(2011) J. C. W. Locke et al.   SCIENCE

A synchronized quorum of genetic clocks

(2010) Tal Danino et al.   NATURE

Towards a Rigorous Assessment of Systems Biology Models: The DREAM3 Challenges

(2010) Robert J. Prill et al.   PLoS One

When the Optimal Is Not the Best: Parameter Estimation in Complex Biological Models

(2010) Diego Fernández Slezak et al.   PLoS One

Revealing strengths and weaknesses of methods for gene network inference

(2010) D. Marbach et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Quantitative Time-Lapse Fluorescence Microscopy in Single Cells

(2009) Dale Muzzey et al.   Annual Review of Cell and Developmental Biology

Systems biology: experimental design

(2009) Clemens Kreutz et al.   FEBS Journal

TinkerCell: modular CAD tool for synthetic biology

(2009) Deepak Chandran et al.   Journal of Biological Engineering

Parameter estimation and determinability analysis applied to Drosophila gap gene circuits

(2008) Maksat Ashyraliyev et al.   BMC Systems Biology

Optimization in computational systems biology

(2008) Julio R Banga   BMC Systems Biology