Are there any other methods to correct variation after background variation, normilization and dye effect correction in data handling of microarray?

12 December 2017 0 3K Report

I have 2 slides. each of slides contains 2 channels scaned by Cy5 and Cy3 fluorescence excitaton.

I have handled data by background effect correction by aligning the mean of each channel in 4 slides. After that, I made scale normalizationa and dye effect correction to remove many variation. But, what is the next steps that are able to help me to remove more variation of microarray chip?

Can you give me any suggestion and useful keywords?

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