[](https://phuego.readthedocs.io/en/latest/index.html)
[](https://pypi.org/project/phuego/)
[](https://pypi.org/project/phuego/)
[](https://pypi.org/project/phuego/)
# phuEGO: a network-based method to reconstruct active signalling pathways
phuEGO is a network-based method to reconstruct active signalling pathways from phosphoproteomics datasets. It combines three-layer network propagation with ego network decomposition to provide small networks comprising active functional signalling modules. PhuEGO boosts the signal-to-noise ratio from global phosphoproteomics datasets, enriches the resulting networks for functional phosphosites and allows the improved comparison and integration across datasets.
Refer to [documentation](https://phuego.readthedocs.io/en/latest/) for details on installation and executation.
The package is currently distributed with [PyPI](https://pypi.org/project/phuego/).
Check the [Zenodo](https://zenodo.org/records/8094690) page for the premade support dataset, which contains processed reference network with semantic similarity,
or the [Nextflow pipeline](https://github.com/haoqichen20/phuego_support) to generate your customized support dataset.
## Citation
Please cite phuEGO if you use it in your analysis.
> **phuEGO: A network-based method to reconstruct active signalling pathways from phosphoproteomics datasets** <br> _Girolamo Giudice, Haoqi Chen, Evangelia Petsalaki_ <br>
> bioRxiv, 2023 <br>
> doi: [10.1101/2023.08.07.552249](https://doi.org/10.1101/2023.08.07.552249) <br>
## Contributors
The algorithm and initial scripts of phuEGO are developed by Girolamo Giudice ([@girolamogiudice](https://github.com/girolamogiudice)) and Evangelia Petsalaki at [EMBL-EBI](https://www.ebi.ac.uk/).
The Python package and command line interface are developed by Haoqi Chen ([@haoqichen20](https://github.com/haoqichen20)) at [EMBL-EBI](https://www.ebi.ac.uk/).
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