/PhosphoSmegPKNB

Phosphoproteomic analysis of M. smegmatis upon expression of MtubPknB

Primary LanguageHTML

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Phospho-proteomic analysis of M. tuberculosis PknB

over-expression in M. smegmatis

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Marie Locard-Paulet - January 2019

This repository contains the working documents that were used for the analysis of the phospho-proteome of Mycobacterium smegmatis after over-expression of the M. tuberculosis kinase PknB. The idea is to identify its potential substrates.

This study is related to the following paper: %%%%%% TO COME %%%%%%

Folder organisation:

  • All the input files of the analysis (output tables from Proteome Discoverer with the quantification and identification data from the MS runs) are in the folder RAW, with the mapping tables used for the analysis (experimental plan and so on). MappingTableProtUniprot_20180117.txt contains the mapping IDs from a Uniprot download.
  • RData contains the intermediate .R files that were saved during the analysis.
  • RScriprs contains the R scripts used for the analysis.
  • Random contains some pre-processing analysis.

The .Rmd files (and output .html report files) that contain the analysis script are the following:

  • 01_DataAnalysis: quality control, normalisation and statistical analysis.