Design and development of a fully synthetic MLPA-based probe mix for detection of copy number alterations in prostate cancer formalin-fixed, paraffin-embedded tissue samples

DNA copy number alterations (CNAs) are promising biomarkers to predict prostate cancer (PCa) outcome. However, fluorescence in situ hybridization (FISH) cannot assess complex CNA signatures due to low multiplexing capabilities. Multiplex ligation-dependent probe amplification (MLPA) can detect multiple CNAs in a single PCR assay, but PCa-specific probe mixes available commercially are lacking. Synthetic MLPA probes were designed to target 10 CNAs relevant to PCa: 5q15-21.1 (CHD1), 6q15 (MAP3K7), 8p21.2 (NKX3-1), 8q24.21 (MYC), 10q23.31 (PTEN), 12p13.1 (CDKN1B), 13q14.2 (RB1), 16p13.3 (PDPK1), 16q23.1 (GABARAPL2), and 17p13.1 (TP53) with 9 control probes.

Source: Journal of Molecular Diagnostics - August 3, 2020 Category: Pathology Authors: Walead Ebrahimizadeh, Karl-Philippe Gu érard, Shaghayegh Rouzbeh, Yogesh M. Bramhecha, Eleonora Scarlata, Fadi Brimo, Palak G. Patel, Tamara Jamaspishvili, Armen G. Aprikian, David Berman, John Bartlett, Simone Chevalier, Jacques Lapointe Tags: Regular Article Source Type: research