About this supplement

Installation

Widget Catalog



D. discoideum example



S. cerevisiae example

Schema
   File
   Scatterplots
   Genome Map
   Expression Profiles
   GO Term Finder
   Expression Profiles (2)
   Heat Map
   Heat Map (2)
   GO Term Finder (2)
   Expression Profiles (3)

Spotlight

Our widgets for functional genomics use Orange, a data mining and machine learning suite. Orange can be accessed through scripting in Python, or by visual programming in Orange Canvas.

In functional genomics, we have also designed a web-based tool for mutant data analysis called GenePath (also featured in Science's NetWatch).


FRI > Biolab > Supplements > Microarray Data Mining with Visual Programming > S. cerevisiae Example > GO Term Finder (2) widget

GO Term Finder (2) widget

"GO Term Finder (2)" widget is used to show the biological process annotation for all 800 genes in the input set. The category "regulation of glycogen biosynthesis" is selected to demonstrate that besides PIG1 (see the "Genome Map" widget), PCL7 is another gene in the original dataset with this GO biological_process annotation. The "Expression Profiles (3)" widget is used to compare the expression profiles of these two genes, and clearly these genes were not coexpressed in the experimental conditions used. Comparison of the "Expression Profiles" and "Expression Profiles (3)" widgets graphs confirms that adjacent position, and not the functional relatedness, is the reason for coexpression in the case of CDC46 and PIG1 (see the "Genome Map" widget).