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GEPAS -Gene Expression Pattern Analysis Suite Hongli Li Computer Science Department UMASS Lowell

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Presentation on theme: "GEPAS -Gene Expression Pattern Analysis Suite Hongli Li Computer Science Department UMASS Lowell"— Presentation transcript:

1 GEPAS -Gene Expression Pattern Analysis Suite Hongli Li Computer Science Department UMASS Lowell http://www.cs.uml.edu/~hli/Courses/CompBio_files/presentations.htm

2 Features Preprocessing –Log-transformation, replication handling, missing value imputation, filtering and normalization Analysis Tools –Viewer –Unsupervised Clustering –Differential Gene Expression –Supervised Classification –Data Mining with Gene Ontology (GO) http://gepas.bioinfo.cnio.es/tools.html

3 Pre-Analyses & Preprocessing Pre-analyses Preprocessing the data –Transform –Deal with replication and missing value –Filter patterns, standardize patterns –Filter genes

4 After Preprocess

5 PlotCorr

6 SOM

7 Cluster

8 EPCLUST Steps –Send to EPCLUST from GEPAS –Proceed –Go to respective page, remember the file name –Select the data interested –Use the interested tools to analysis http://ep.ebi.ac.uk/EP/EPCLUST/

9 Conclusion Easy to use Preprocessing is quite powerful Connected to gene database

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