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Timothy Shaw edited this page Feb 21, 2021 · 15 revisions

Introduction to DRPPM

DRPPM is a library collection of scripts for analyzing DNA/RNA/Proteome/Post-translational Modifications. While its main purpose is to ensure reproducibility for my publications, many of the pipelines might be useful for general public use. The library contains scripts and software pipelines for analyzing somatic lesions, transcription regulation, proteome, and metabolome. As part of the package, tools were developed for gene/protein network analysis and interactive visualizations.Examples of the input and outputs could be found here

Installation

To get started with DRPPM https://github.com/gatechatl/DRPPM/wiki/Installation

Example publication that utilizes DRPPM includes

  1. KH Lee, P Zhang, HJ Kim et al. C9orf72 Dipeptide Repeats Impair the Assembly, Dynamics, and Function of Membrane-Less Organelles. Cell 167 (3), 774-788. e17

  2. KM Joo JH, Wang B et al. The Noncanonical Role of ULK/ATG1 in ER-to-Golgi Trafficking Is Essential for Cellular Homeostasis. Mol Cell 62 (4), 491-506.

  3. Tan H, Yang K, Li Y, Shaw T et al. Integrative Proteomics and Phosphoproteomics Profiling Reveals Dynamic Signaling Networks and Bioenergetics Pathways Underlying T Cell Activation. Immunity. 2017 Mar 21;46(3):488-503. doi: 10.1016/j.immuni.2017.02.010.

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