Multi-task learning for Host-Pathogen protein interactions
Meghana Kshirsagar, Jaime Carbonell and Judith Klein-Seetharaman, ISMB 2013
Supplementary document accompanying the paper. This has a detailed description of the features used in Section 2.
Supplementary and Features notes
Predicted interactions of human proteins with the four bacterial species:
Format of files: Bacterial-uniprotID Bacterial-geneSymbol Human-uniprotID Human-geneSymbol
Pathways enriched by the human genes from the predicted interactions:
Pathways enriched by interaction with B. anthracis
Pathways enriched by interaction with F. tularensis
Pathways enriched by interaction with Y. pestis
Pathways enriched by interaction with S. typhi
Training data (PPIs) used in the paper
Here's the README file so you know what's in there. Here's the training data: training_data.zip
Code and sample data to run it
Download it here: code.zip. This contains a README.TXT which has additional information about compiling/running and the sample datasets. Feel free to contact me if you have any questions or for the datasets used in the paper (too large to upload here).