SPLAT

SPLAT enables simultaneous protein localization and turnover analysis from mass spectrometry-based proteomics experiments.
Author

Edward Lau

Published

March 30, 2023

Abstract
This page provides the documentation for the SPLAT package, which is a tool for simultaneously measuring the spatial and temporal dynamics of proteins in the cell.

Edward Lau Lab, University of Colorado School of Medicine

SPLAT

SPLAT (Simultaneous Proteome Localization and Turnover) is a method to simultaneously quantify protein translocation and turnover rates in vivo. This repository provides a workflow to process tandem mass tag (TMT) and stable isotopic labeling by amino acids in cell culture (SILAC) mass spectrometry data generated in SPLAT experiments.

The SPLAT workflow is implemented in Snakemake and calls two in-house software packages, RIANA and PyTMT, for processing the SILAC (turnover) and TMT (localization) data, respectively. The workflow is can be run locally on a single machine.

An example SPLAT workflow for four turnover time points. Each time point is additionally associated with a spatial proteomics experiment.

The latest version and source code of SPLAT can be found on github: https://github.com/lau-lab/splat.

See the Documentation page for instructions.

Contributors