C5: Software for Microarray Analysis ??????????? (2004/12/12)

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C5 Software for Microarray Analysis
??????????? (2004/12/12)
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M-A plot and Piecewise Normalization

• M(log2Cy3 - log2Cy5)
• A (log2Cy3log2Cy5)/2
• An M-A plot and a set of
• local line fit is given below

• compustt spot features
• maplot matlab MA plot
• linefit2 normalization
• geneUD up/down genes
• cluster K-means Algo.
• bestBC feature selection
• select gene selection
• listgene list genes

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Differentially Expressed Genes Selected
from 44 Patients of Hepatoma

• Up regulated genes
• AI133162
• M12654
• X01098
• M13149
• K02922
• Down Expressed genes
• BG621010
• M24173

• The up-regulated (down-regulated) genes are
  defined as those genes with the normalized log2
  ratio log2(Cy3/Cy5) greater (smaller) than a
  user-specified threshold T (-T), e.g., T2.0

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Hierarchical Clustering on 39 Patients of HBV/HCV
by 32 Discriminative Genes