WebPARE: web-computing for inferring genetic or transcriptional interactions.

ABSTRACT:

Summary

Inferring genetic or transcriptional interactions, when done successfully, may provide insights into biological processes or biochemical pathways of interest. Unfortunately, most computational algorithms require a certain level of programming expertise. To provide a simple web interface for users to infer interactions from time course gene expression data, we present WebPARE, which is based on the pattern recognition algorithm (PARE). For expression data, in which each type of interaction (e.g. activator target) and the corresponding paired gene expression pattern are significantly associated, PARE uses a non-linear score to classify gene pairs of interest into a few subclasses of various time lags. In each subclass, PARE learns the parameters in the decision score using kn

SUBMITTER: Chuang CL 

PROVIDER: S-EPMC2820674 | biostudies-literature | 2010 Feb

REPOSITORIES: biostudies-literature