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The original experiment is listed on the Gene Expression Omnibus as GSE848; however, this tutorial only uses a subset of the original experiment and should be downloaded from the Partek website tutorial page, Gene Expression - Treatment and Time VariablesAnalysis with Batch Effects. 

• Download the zipped project folder, Breast_Cancer-GE.zip
• Unzip the project folder to Cto C:/Partek Training DataTraining Data/ or a directory of your choosing

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• Open Partek Genomics Suite
• Select () from the main command bar in Partek Genomics Suitebar 
• Navigate to the tutorial folder, Breast_Cancer-GE
• Select Breast_Cancer.txt 
• Select Open (Figure 1)
  
  

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The summary at the bottom the spreadsheet shows there are 18 rows and 12,631 columns in the spreadsheet. The first column contains the Filename listing the GEO GSM number. This is also is an identifier for the microarray. Treatment, Time, and Batch are in columns 2, 3, and 4, respectively. Column 6 marks the beginning of the probesets. The data is log2 log₂ transformed. 

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