Perseus Plugin for PECA

Protein Expression Control Analysis (PECA) is a statistical toolbox to analyze time-series multi-omics dataset where molecules in one -omics platform serve as template for synthesis of the other. For example, PECA can analyze paired RNA and protein time series data in order to identify change points of the impact translation and protein degradation on changes in protein concentration given changing RNA concentrations.

The modules are presented mostly for the analysis of paired protein-RNA data. However, we note that PECA can be applied to any analogous dataset. For example, one can use PECA can analyze paired DNA and RNA concentration data (where the DNA concentration is typically set to 1) and provide a change point analysis for the impact of transcription and RNA degradation on changes in RNA concentration, given DNA.

The principal method was published here (Teo et al, J. Prot. Res. 2014). Additional information on the methods and the modules contained in PECAplus are described here.

See the Wiki for full documentation.

See Samples for sample files and parameters.

See PECAplus CLI for Command-Line Interface version.

64 bit Windows with .NET Framework 4.5 or higher (See Perseus Requirements)

PERSEUS latest version (See Perseus Download and Installation Guide)

Currently, the plugin is only distributed through github.

To install through github:

• Download Perseus-PluginPECA ZIP
• Unzip pluginpeca_<version>.zip
• Locate the directory of Perseus.exe, which contains bin folder
• Copy/Cut pluginPECA.dll file and PECAInstallations folder from pluginpeca_<version>
• Paste into the bin folder

For bugs, questions and discussions please use the GitHub Issues.

Copyright (C) <2017> Guoshou Teo < gt49@nyu.edu >, Yunbin Zhang < yz2236@nyu.edu >, Christine Vogel < cvogel@nyu.edu >, and Hyungwon Choi < hwchoi@nus.edu.sg >, National University of Singapore.

Licensed under the Apache License, Version 2.0 (the "License");

you may not use this file except in compliance with the License.

You may obtain a copy of the License at

Apache 2.0 license

Unless required by applicable law or agreed to in writing, software

distributed under the License is distributed on an "AS IS" BASIS,

WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.

See the License for the specific language governing permissions and

limitations under the License.