Metabolic Engineering and Systems Biology Laboratory

Downloads

1. Network Component Analysis:
   • NCA toolbox v. 2.3 for Matlab 7 (released Feb. 19, 2007)
   • NCA proofs (Liao et al. PNAS 2003, 15522-15527 appendices.)
   • NCA Modules and Data files (Kao et al. PNAS 2004, 641-646.)
2. Software for Statistical Analysis of Microarray data: lcDNA.
   • Tseng et al. NAR 2001
   • Hyduke et al. OMICS 2003
3. Supplemental information for papers:
   • Huang et al. PNAS 2001, 11771-11776:
     • Competition Assay Protocol
     • Software for Competition Assay
   • Oh et al. JBC 2002, 277, 13175-13183: Microarray data file
   • Sabatti et al. NAR 2002, 2886-2893: E. coli Operon Map
4. A synthetic gene-matabolic oscillator
   • links to the paper: Fung et al. Nature, 435, 118-122.
   • Download Supplementary material
5. Brynildsen, M.P., Tran, L. M. and Liao, J.C. (2006) A Gibbs Sampler for the Identification of Gene Expression and Network Connectivity Consistency. Bioinformatics, 22, 3040-3046.
   • link to paper: Brynildsen et al. Bioinformatics, 22, 3040-3046
   • Software and Supplementary Information: download software uploaded 5/8/2007
   • Network visualization: Osprey - SIF uploaded 3/30/2007