Michael D. Onken, Lori A. Worley, Rosa M. Dávila, Devron H. Char, J

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Presentation transcript:

Prognostic Testing in Uveal Melanoma by Transcriptomic Profiling of Fine Needle Biopsy Specimens Michael D. Onken, Lori A. Worley, Rosa M. Dávila, Devron H. Char, J. William Harbour The Journal of Molecular Diagnostics Volume 8, Issue 5, Pages 567-573 (November 2006) DOI: 10.2353/jmoldx.2006.060077 Copyright © 2006 American Society for Investigative Pathology and Association for Molecular Pathology Terms and Conditions

Figure 1 Overview of study design. The Journal of Molecular Diagnostics 2006 8, 567-573DOI: (10.2353/jmoldx.2006.060077) Copyright © 2006 American Society for Investigative Pathology and Association for Molecular Pathology Terms and Conditions

Figure 2 Heat maps showing unsupervised hierarchical clustering of uveal malignant melanomas (MM), matching mock biopsy specimens (MB), and needle biopsy specimens (NB) using 806 probe sets filtered for a median significance P value <0.05 and gene expression variance >1. The Journal of Molecular Diagnostics 2006 8, 567-573DOI: (10.2353/jmoldx.2006.060077) Copyright © 2006 American Society for Investigative Pathology and Association for Molecular Pathology Terms and Conditions

Figure 3 A: Venn diagram showing concordant probe sets between the NB, MM-MB, and origMM datasets. B: Comparison of GenChip expression units for the 45-probe set list in the indicated datasets. C: Hierarchical clustering and (D) principal component analysis of the indicated datasets using the 45-probe-set list (blue spheres, class 1 tumors; red spheres, class 2 tumors). The two classes indicated in the Tschentscher dataset refer to monosomy versus disomy for chro-mosome 3. The Journal of Molecular Diagnostics 2006 8, 567-573DOI: (10.2353/jmoldx.2006.060077) Copyright © 2006 American Society for Investigative Pathology and Association for Molecular Pathology Terms and Conditions

Figure 4 Predictive model for classifying tumor samples for the indicated datasets. The predictive model was evaluated for class assignment by transcriptome signature in all datasets except the Tschentscher dataset, which was evaluated for monosomy 3. Probe sets were entered randomly (−mRMR) or by minimum redundancy and maximum relevance (+mRMR) into a weighted voting algorithm. Classification errors calculated by leave-one-out cross-validation are plotted on the upper graph. The mean and minimum confidence scores are plotted on the lower graph. The Journal of Molecular Diagnostics 2006 8, 567-573DOI: (10.2353/jmoldx.2006.060077) Copyright © 2006 American Society for Investigative Pathology and Association for Molecular Pathology Terms and Conditions