Team:ETH Zurich/Modeling/Download
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Luca.Gerosa (Talk | contribs) (→Genome Static Analysis) |
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* digestionSimulation.m - perform the digestion of chromosome using all the restriction enzymes. | * digestionSimulation.m - perform the digestion of chromosome using all the restriction enzymes. | ||
* genomeStaticAnalysis.m - main function, invoke the digestion procedure and plots the five graphs. | * genomeStaticAnalysis.m - main function, invoke the digestion procedure and plots the five graphs. | ||
- | * essentialGenes.mat - list of essential genes (single knockouts are mortal), obtained from source cited in [[ | + | * essentialGenes.mat - list of essential genes (single knockouts are mortal), obtained from source cited in [[Team:ETH_Zurich/Modeling/Genome_Static_Analysis|'''Restriction Enzymes Analysis page''']]. |
'''Author(s):''' Luca and Georg. | '''Author(s):''' Luca and Georg. |
Revision as of 11:09, 26 October 2008
Genome Static AnalysisDownload file: File:ETHZ-iGEM2008-GenomeStaticAnalysis.zip Compute: This simulation download the genome annotation of E.Coli K12 MG1655 from GenBank and restriction enzymes informations from REBASE. For each restriction enzyme, calculates the fragments generated by digesting the chromosome of the strain. It calculates statistics on various aspects, such as probability of having an essential gene per fragment. Output: An array of records, each one containing statistical analysis for one of the restriction enzyme groups. Generates five plots that explain the statistical results. Softwared needed: MATLAB with BioInformatic Toolbox. Third part code: use of standard Bioinformatic Toolbox functions. Files and descriptions:
Author(s): Luca and Georg. Genome-scale ModelDownload file: [[]] Compute: Output: Softwared needed: Third part code: Files and descriptions: Author(s): Chemostat SelectionDownload file: [[]] Compute: Output: Softwared needed: Third part code: Files and descriptions: Author(s): Switch CircuitDownload file: [[]] Compute: Output: Softwared needed: Third part code: Files and descriptions: Author(s): |