Functional Geometry of Protein-Protein Interaction Networks

Noël Malod-Dognin and Nataša Pržulj

Corresponding author: Prof. N. Pržulj, natasa.przulj@mbzuai.ac.ae

Downloads

• Dataset 1: higher-order interactome simplicial complexes
• Dataset 2: real-world simplicial complexes
• Dataset 3: random model simplicial complexes
• Simplet counter

The datasets are .7z archives. Extract them with 7-Zip (Windows), The Unarchiver (macOS), or 7z x <file>.7z in a terminal.

Simplet counter

To compile:

g++ -o SCounter.exe -Wall Simplets.cpp -O3

To run:

./SCounter.exe <input simplicial complex> <output SDV file>

The output is the Simplet Degree Vector (SDV) of each node.

Citation

N. Malod-Dognin and N. Pržulj. Functional geometry of protein-protein interaction networks. Bioinformatics 35(19), 3727–3734 (2019). https://doi.org/10.1093/bioinformatics/btz146