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Labbook 2015

PathologyPATHOLOGY LABBOOK 2015 Saggital rat brain section at 30µm pixel size. Highly localized ion distributions show delicate structures such as the hippocampal pyramid layer and the ependyma in the overlay with the microscopic image. Proteins in gastric Cancer at 30µm pixel size. The microscopic image can be overlaid and seam- lessly cross-faded to assign molecular signals to histological features. Adding a molecular dimension to histology The meaningful analysis of mass spectrometric imaging datasets requires a comparison with conventional histology based on the microscopic analysis of a stained tissue section. The soft smartbe- am 3D laser of the rapifleX leaves the tissue intact after the MALDI Tissuetyper analysis. The section can then be stained. Bruker's lea- ding software allows to superimpose the high-resolution histologi- cal image acquired from a digital slide scanner with the molecular MALDI data. Seamless cross-fading between the microscopic and mass spectrometric modality truly adds a molecular dimension to histology. Detailed analysis is possible by either defining regions of interest (ROI) based on the microscopic data or by interactive spatial segmentation of the mass spectrometric datasets. Leading software MALDI Tissuetyper datasets can be very large and require power- ful software tools. SCiLS lab software allows the analysis of very large datasets and entire research studies for statistical analy- sis. Data for individual biomarkers, ROC-analysis and univariate hypothesis tests can be analyzed. Multivariate component analysis shows the relevant information in a set of meaningful images and spatial segmentation allows to create regions with similar molecu- lar phenotypes. A particularly powerful feature is the supervised tissue typing: It allows to train classifiers for specific tissue states and to classify new samples in search of new biomarkers for pa- thology. The 3D-option makes it easy to reconstruct 3-dimensional volumes from consecutive sections. With the unprecedented speed of the rapifleX MALDI Tissuetyper 3D-imaging becomes more readily accessible. Spatial segmentation based on similarity of molecular phenotypes shows functional regions in a saggital rat brain section. Distribution of different lipids in rat testis at 10µm pixel size Lipids in rat testis at 5µm pixel size. The tissue stays intact and can be histologically stained LABBOOK 2015 41 LABBOOK 201541

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