gepas gene expression pattern analysis suite
DESCRIPTION
GEPAS Gene Expression Pattern Analysis Suite. Ka-Lok Ng Dept. of Bioinformatics Asia University. Prepare a text file with tab delimiter Line starts with ‘#’ denotes comment http://gepas.bioinfo.cipf.es/ - PowerPoint PPT PresentationTRANSCRIPT
GEPASGene Expression Pattern Analysis Suite
Ka-Lok Ng
Dept. of Bioinformatics
Asia University
• Prepare a text file with tab delimiter
• Line starts with ‘#’ denotes comment
• http://gepas.bioinfo.cipf.es/
• Tools clustering choose SOTA upload the text file decide the threshold, i.e. 80% RUN
• To view the tree click ‘send to SotaTree’ default parameters RUN
Clusters information
Click to view the profile
Profile – horiz. & vert. large scale
• Cluster 3
Diauxic data
• http://gepas3.bioinfo.cipf.es/cgi-bin/sets/diauxic
Diauxic data
• Tools clustering choose SOTA upload the text file decide the threshold, i.e. 90% RUN
• To view the tree click ‘send to SotaTree’ default parameters RUN
Click on the cluster 6, it has 108 elements
Extract cluster 6 - PlotCorr
• column 1 vs column 2
Threshold = 0.2
Threshold = 0.0
Extract cluster 6 – TreeView
Tree width = 2200
Data – K-means cluster