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Download CEPAS -Gene Expression Pattern Analysis Suite
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Transcript
GEPAS -Gene Expression Pattern Analysis Suite Hongli Li Computer Science Department UMASS Lowell http://www.cs.uml.edu/~hli/Courses/CompBio_files/presentations.htm 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 Pre-Analyses & Preprocessing • Pre-analyses • Preprocessing the data – Transform – Deal with replication and missing value – Filter patterns, standardize patterns – Filter genes After Preprocess PlotCorr SOM Cluster 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/ Conclusion • Easy to use • Preprocessing is quite powerful • Connected to gene database
