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Pier Paolo Piccaluga, Claudio Agostinelli, Andrea Califano, Maura Rossi, Katia Basso, Simonetta Zupo, Philip Went, Ulf Klein, Pier Luigi Zinzani, Michele Baccarani, Riccardo Dalla Favera, Stefano A. Pileri
Published in Volume 117, Issue 3
J Clin Invest. 2007; 117(3):823–834 doi:10.1172/JCI26833
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Figure 4
Supervised analysis of PTCL/U and normal lymphocytes identifies differentially expressed genes.

Identification of genes differentially expressed in PTCL/U and normal T lymphocytes. Supervised analysis was performed using 17 samples of PTCL/U (training set) versus the 3 normal T cell subpopulations identified as the closest normal counterparts (CD4+, CD8+, and HLA-DR+). The support value for the analysis was chosen as n = n0 (n0, number of samples in the phenotype set). (A) The analysis identified 155 genes that are differentially expressed in PTCL/U versus all the other samples (Supplemental Tables 5 and 6). The expression of the 155 genes was then investigated and validated in an independent test set (11 PTCL/U cases), represented on the right side of the matrix. (B) A cell-type classification is used to measure the relatedness of test set cases to PTCL/U (training set) and normal T cells. The gray area marks 95% of confidence: the P value decreases with increasing distance from the x axis. (C) In addition, the identified 155 genes correctly classified all the 11 PTCLs/U of the test set in unsupervised analysis.