From Gene Expression Analysis to Tissue Microarrays

Abstract

Mantle cell lymphoma (MCL) is an aggressive lymphoid malignancy for which better treatment strategies are needed. To identify potential diagnostic and therapeutic targets, a signature consisting of MCL-associated genes was selected based on a comprehensive gene expression analysis of malignant and normal B cells. The corresponding protein epitope signature tags were identified and used to raise monospecific, polyclonal antibodies, which were subsequently analyzed on paraffin-embedded sections of malignant and normal tissue. In this study, we demonstrate that the initial selection strategy of MCLassociated genes successfully allows identification of protein antigens either uniquely expressed or overexpressed in MCL compared with normal lymphoid tissues.

Design of recombinant antibody microarrays for complex proteome analysis: Choice of sample labeling‐tag and solid support

“…In recent years, high-throughput genomics has provided the blueprints for numerous genomes, paving the way for major breakthroughs in biomedicine [1][2][3]. Inspired by these advances, proteomics -the large scale analysis of proteins -has become a key discipline for addressing protein expression patterns and for understanding function and regulation of entire set of proteins encoded by an organism [2,[4][5][6][7].…”

Differential expression, localization and activity of MARCKS between mantle cell lymphoma and chronic lymphocytic leukemia

“…To search for MCL-/CLL-specific biomarkers, we noted 222 mRNAs, from which 216 were changed in the same direction, whereas 6 mRNAs were deregulated in the opposite direction between MCL and CLL, which implicates their common and unique pathogenic roles ( Figure 1a ). The set of six disease-specific mRNAs contained previously reported biomarkers: CD200, 2 LEF1, 4 CRIM1, 7 Titin, 8 an unknown RNA, and finally the myristoylated alanine-rich C-kinase substrate (MARCKS) that has not yet been studied in MCL. MARCKS encodes for an 87 kDa protein containing three functional domains: membrane-associated myristoylated N-terminal domain, MH2 domain and also a phosphorylation domain that is recognized by protein kinase C (PKC), calmodulin, actin or phosphatidylinositol bisphosphate PIP2.…”

Discovery of structural alterations in solid tumor oligodendroglioma by single molecule analysis

“…This gene plays a vital role in cell adhesion, cytoskeletal organization and lipid metabolism [79-81]. It is highly expressed in B-cell associated malignancies [82,83], where it is one of the common sites of retroviral integration [84]. An independent study that used exon sequencing to study oligodendroglioma also found somatic mutations in OSBPL3 [30].…”