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:
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.
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
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
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,