Web Service for Yeast Protein-Protein Interaction Predictions (YPPIP)

 


 

 

 

Services:

 

 

Query Database

 

Getting Help

 

 

Downloads

 

 

Reference

 

Welcome to the Web Service for Yeast Protein-Protein Interaction Predictions (YPPIP).

Here is some information on what this web service does and how to use it:

 

General information:

Many fundamental biological processes involve protein-protein interactions. Comprehensively identifying these interactions in model organisms is important to systematically defining protein cellular roles. We studied three aspects related to combining multiple biological evidences to predict protein-protein interactions in yeast. The evidence includes not only the datasets that specifically look for protein interaction but also indirect information such as mRNA expression data, protein-DNA binding data, protein localization data. For more detailed information, pls. consult the original paper published in Proteins Structure, Dynamics and Bioinformatics. Here, we provide a web interface to a web service to our predictions on interactions between yeast proteins.

 

There are several ways to query our Yeast Protein-Protein Interaction (PPI) Predictions Database.

 

Function 1. Search interaction partners for a query protein or set of proteins.

This service allows mining the entire predicted yeast interactome to find interaction partners for a query or a list of queries. Results are returned for pairs with interaction scores higher than an input score threshold (user defined). The user chooses the classification algorithm and data used for training and retrieves the predictions by choosing the respective scores. The query proteins can be entered as either gene symbols or ORF names. A service to convert gene symbols and ORF names and vice versa is provided at the right bottom window (Function 3: Gene Name Converter).

 

Function 2. Check predicted scores for a pair of input proteins

This service returns the predicted scores for the different classification algorithms and data used for training for a pair of input proteins. The query proteins can be entered as either gene symbols or ORF names. A service to convert gene symbols and ORF names and vice versa is provided at the right bottom window (Function 3: Gene Name Converter).

 

How to reference the YPPI service:

Qi, Y., Bar-Joseph, Z. and Klein-Seetharaman, J. (2005) Evaluation of different biological data and computational classification methods for use in protein interaction prediction. Proteins - Structure, Function and Bioinformatics 63, 490-500.

 

 

 

 

 


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