Systems Metabolic Engineering

Genome-Scale Model Management and Comparison.- Automated Genome Annotation and Metabolic Model Reconstruction in the SEED and Model SEED.- Metabolic Model Refinement Using Phenotypic Microarray Data.- Linking Genome-Scale Metabolic Modeling and Genome Annotation.- Resolving Cell Composition through Simple Measurements, Genome-Scale Modeling, and a Genetic Algorithm.- A Guide to Integrating Transcriptional Regulatory and Metabolic Networks Using PROM (Probabilistic Regulation of Metabolism).- Kinetic Modeling of Metabolic Pathways: Application to Serine Biosynthesis.- Computational Tools for Guided Discovery and Engineering of Metabolic Pathways.- Retrosynthetic Design of Heterologous Pathways.- Customized Optimization of Metabolic Pathways by Combinatorial Transcriptional Engineering.- Adaptive Laboratory Evolution for Strain Engineering.- Trackable Multiplex Recombineering for Gene-Trait Mapping in E. coli.- Identification of Mutations in Evolved Bacterial Genomes.- Discovery of Post-Transcriptional Regulatory RNAs Using Next Generation Sequencing Technologies.- 13C-based Metabolic Flux Analysis: Fundamentals and Practice.- Nuclear Magnetic Resonance Methods for Metabolic Fluxomics.- Using Multiple Tracers for 13C Metabolic Flux Analysis.- Isotopically Nonstationary 13C Metabolic Flux Analysis.- Sample Preparation and Biostatistics for Integrated Genomics Approaches.- Targeted Metabolic Engineering Guided by Computational Analysis of Single Nucleotide Polymorphisms (SNPs).- Linking RNA Measurements and Proteomics with Genome-Scale Models.- Comparative Transcriptome Analysis for Metabolic Engineering.- Merging Multiple Omics Datasets In Silico: Statistical Analyses and Data Interpretation.