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In this talk, a study on SOX2 amplification in non-small cell lung cancer with a special focus on IHC assessment using the Definiens Tissue Studio image analysis software will be presented. The aim of the study was to verify SOX2 amplification and protein over-expression in non-small cell lung cancers (NSCLC) and to compare these results with patient and tumor characteristics. A total of 940 NSCLCs from two independent population-based cohorts containing predominantly adenocarcinomas of the lung and squamous cell lung carcinomas, were assessed by fluorescence in-situ hybridization (FISH) and immunohistochemistry (IHC) to study SOX2 amplification and expression level. For protein expression analysis, the expression level was explored by utilizing Definiens Tissue Studio.