Mutational Analysis of Oncogenic Drivers

Formalin-fixed paraffin-embedded (FFPE) tumor specimens, obtained as part of standard oncologic management, were subjected to mass spectrometry genotyping using the iPLEX system (Sequenom, San Diego, CA) using a multiplexed system for genotyping PIK3CA, AKT1, KRAS, NRAS, and BRAF [11 (link)–13 (link)]. Additionally, tumor PTEN expression was scored as 0, 1+, or 2+, according to previously described immunohistochemistry (IHC) methods (Dako, clone 6H2.1) [14 (link)].

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Hyman D.M., Snyder A.E., Carvajal R.D., Gerecitano J.F., Voss M.H., Ho A.L., Konner J., Winkelmann J.L., Stasi M.A., Monson K.R., Iasonos A., Spriggs D.R., Bialer P., Lacouture M.E., Teitcher J.B., Katabi N, & Fury M.G. (2015). Parallel phase Ib studies of two schedules of buparlisib (BKM120) plus carboplatin and paclitaxel (q21 days or q28 days) for patients with advanced solid tumors. Cancer chemotherapy and pharmacology, 75(4), 747-755.

Publication 2015

iPLEX system clone 6H2.1

Akt1 Braf Clone Formalin Immunohistochemistry Iplex Kras Mass spectrometry Nras Paraffin Pik3ca Pten Tumor

Corresponding Organization :

Other organizations : Memorial Sloan Kettering Cancer Center, Cornell University

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Variable analysis

independent variables

PIK3CA
PTEN expression (0, 1+, or 2+)

dependent variables

Mass spectrometry genotyping results for PIK3CA, AKT1, KRAS, NRAS, and BRAF
PTEN expression score (0, 1+, or 2+)

control variables

Formalin-fixed paraffin-embedded (FFPE) tumor specimens
Obtained as part of standard oncologic management

controls

No positive or negative controls were explicitly mentioned in the input protocol.

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