Prots2Net

Introduction

Prots2Net is a tool designed to predict the protein-protein interactions of a proteome or a metaproteome sample. The prediction model is a multilayer perceptron neural network that uses protein sequence information only from the input proteins and interaction information from the STRING database. To train the model, Prots2Net explores the PPINs retrieved from the STRING database of two selected species.

How to install and execute

To install and execute Prots2Net, Python3.6+ is needed. To execute it first install the dependencies in requirements.txt and then run with python -m GUI.main

How to use

In the first stage of Prots2Net, the user inserts the proteins sequences whose PPIs are required. In the second stage, Prots2Nets predicts the interactions.
And finally, the user can visualize and analyze the network in the third stage.

Graphical User Interface

The Prots2Net GUI consist in 4 different tabs:

1. A tab to insert data and compute the predicted network
2. A tab to visualize the predicted network
3. A tab to visualize the proteins
4. A tab to visualize the predicted interactions

Insert data

Visualize network

Visualize proteins

Visualize interactions

Extra System Requirements

In order to use blast locally, blast must be installed locally. Instructions can be found in https://www.ncbi.nlm.nih.gov/books/NBK52640/ .