GENE EXPRESSION PROFILES STUDY

Blood Samples

1 Sample Groups Biopsy

• Group 1: NORMAL, PRETRANSPLANT (n=21)
• Group 2: NORMAL, POSTTRANSPLANT (n=21)
• Group 3: ACUTE REJECTION (n=7)
• Group 4: CHRONIC ANTIBODY MEDIATED REJECTION (n=21)
• Group 5: BKV VIREMIA (n=19)
• Group 6: IFTA (n= 18 - Sample 9v0(10666) is missing)

1.1 Sample Summary

2 New Comparisons: kSORT

kSORT assay genes (table below) predicting acute rejection (Group 3), chronic antibody mediated rejection (Group 4), and BKV viremia (Group 5) compared to Groups 1, 2 and 6.

2.1 Predicting Acute Rejection (G3 VS. G1+G2+G6)

2.1.1 kSORT Subset Gene Expression

2.1.2 kSORT Genes as predictors

2.1.3 Feature selection: finding an optimal subset of kSORT Genes

A Recursive Feature Elimination (RFE) with 5-fold cross-validation with a Support Vector Machine algorithm was used to select the optimal subset of features that maximise the area under the receiver operating characteristic curve.

2.2 Predicting Chronic Antibody Mediated Rejection (G4 VS. G1+G2+G6)

2.2.1 kSORT Subset Gene Expression

2.2.2 kSORT Genes as predictors

2.2.3 Feature selection: finding an optimal subset of kSORT Genes

2.3 Predicting Rejection (G3+G4 VS. G1+G2+G6)

2.3.1 kSORT Subset Gene Expression

2.3.2 kSORT Genes as predictors

2.3.3 Feature selection: finding an optimal subset of kSORT Genes

2.4 Predicting BKV Viremia (G5 VS. G1+G2+G6)

2.4.1 kSORT Subset Gene Expression

2.4.2 kSORT Genes as predictors

2.4.3 Feature selection: finding an optimal subset of kSORT Genes