iScience splitTurboID Python scripts

Description

Custom-made Python scripts designed to analyze the overlap of splitTurboID datasets (label-free or SILAC Arg0Lys0 vs Arg10/Lys8). Scripts are provided here as both .py and .txt files. Python Scripts_Readme file Sifter_SILAC_v1.0 Sifter_LabelFree_v1.0 Overlapper_SILAC_v1.0 Overlapper_LabelFree_v1.0 Plotter_SILAC_v1.0 Plotter_LabelFree_v1.0

Steps to reproduce

Sifter opens a proteinGroups.txt file from a MaxQuant output and generates a simplified .csv file by discarding flagged contaminants, proteins identified in the reverse dataset and proteins with no quantified intensity values. Note that this script must be adjusted manually to fit specific needs and file formats (e.g. if using a different version of MaxQuant than v2.1.4.0 or different isotopic amino acids). Overlapper opens multiple “Sifted” files and generates a comparison of the distribution of identified proteins across them. Plotter opens the summary file from the Overlapper script and generates a 3D graph of the proportional distribution of identified proteins across the datasets.

Institutions

• University of Ottawa

  Ontario, Ottawa

Categories

Licence