hromosomal translocations are associated with subtypes of B-cell lymphoma, 1) even though the association is not necessarily specific.2) The most common translocations are t(14;18)(q32;q21), t(8;14)(q24;q32) and t(3q27), involving BCL2, MYC and BCL6 genes, respectively. 1) At present, however, very little is known about the molecular mechanism that connects the chromosomal translocation and clinicopathological features of each lymphoma subtype.Complementary DNA (cDNA) array is a recently developed technology that simultaneously quantifies the expression levels of a large number of genes. Application of this large-scale gene expression analysis to lymphoma studies has led to the identification of new diagnostic marker genes for particular lymphoma subtypes, 3) previously unknown subclasses within diffuse large B-cell lymphoma (DLBCL) 4,5) and molecular markers predicting clinical outcome of DLBCL.6) These molecular classifications of lymphomas using gene expression levels are performed by clustering analysis.7) The goal of cluster analysis is to separate a collection of complex samples into groups in such a way that the most similar samples are grouped together. Unsupervised clustering methods, which do not use any information from the samples, are used to discover new classes within a generic disease. Supervised clustering methods, in contrast, start from a known classification and find the best methods for distinguishing the classes.
6, 7)Follicular lymphoma (FL) is characterized by t(14;18) (q32;q21), which leads to molecular fusion of the BCL2 gene with immunoglobulin heavy chain gene (IgH). Although FL initially shows an indolent clinical behavior, the disease is ultimately transformed to aggressive lymphoma (transformed FL, tFL). In contrast, Burkitt's lymphoma (BL) is a high-grade disease and the majority of cases carry t(8;14)(q24;q32). To determine the gene expression characterizing these two contrasting B-cell lymphomas, we compared the gene expression profiles of tFL and BL cell lines in a supervised fashion. Since BL is divided into endemic type BL with Epstein-Barr virus genome (EBV(+)BL) and sporadic type EBV(-)BL, the clustering analysis was performed for tFL-EBV(-)BL-EBV(+)BL subtype distinction. We next extended the clustering algorithm to cell lines from intermediate-grade de novo DLBCL carrying various genetic abnormalities. The findings of this study may reveal differential gene expressions that characterize B-cell lymphoma subtypes.
Materials and MethodsCell lines and clinical materials. tFL cell lines, 8) FL-618, FL-718 and FL-818 lines were established from patients who had had histologically confirmed FL. All the tFL cell lines carried t(14;18)(q24;q32), which is the hallmark of FL. The EBV(-)BL and EBV(+)BL cell lines were described previously.9) DLBCL cell lines were from patients with de novo large cell lymphoma. The B-cell origin of these lymphoma cell lines was determined by immunophenotypic analysis using monoclonal antibodies and flow cytometry. LCL-OHN is an EBV-transformed lymphob...