Visualizing the spatial arrangement of cells and their gene expression with native morphological context in tissues is crucial to the comprehensive understanding of biology and disease. With CytAssist, we demonstrate spatial transcriptome-scale detection of gene expression in FFPE tissue samples sectioned on standard histology glass slides via the transfer of transcriptomic probes from tissues of varying thickness, RNA quality, size, and origin.
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The Visium CytAssist Spatial Gene Expression solution allows spatially-aware, transcriptomic profiling of Fresh Frozen (FF) and Formalin-Fixed, Paraffin-Embedded (FFPE) samples, using probe-based RNA-templated ligation (RTL) chemistry. Here, we demonstrate extended capabilities of CytAssist to make highly sensitive transcriptomic measurements from PFA fixed, OCT embedded (Fixed Frozen or FxF) samples.
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Using the CytAssist workflow, we showcase the ability to identify immune cell localization within multiple immune and tumor tissues, including an array of human breast cancer punches. Spatial expression patterns of immune markers map back to distinct morphological features within the samples. Overall, these data highlight the value of Visium CytAssist Spatial Gene and Protein Expression assay in immuno-oncology studies, through the integration of spatially resolved transcriptomic and immune cell protein marker data for FFPE tissue sections.
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Here, we demonstrate the application of the Visium Cytassist Spatial Gene Expression Solution on archival multi-tumor tissue microarrays (TMAs) to screen for common cancer genes among a cohort of breast cancer and multi-tumor samples.。
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Defining the spatial arrangement of cells in brain tissue and their gene expression provides comprehensive understanding of nervous system development and disease states. Here, we use the Visium CytAssist to enable spatial gene expression assays for detection and mapping of RNA expression within the native morphological context of human and mouse brain FFPE tissue sections placed on standard glass slides.
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Here, we used the Visium CytAssist instrument and the Visium CytAssist Spatial Gene Expression Kit for FFPE to profile the whole transcriptome and immunofluorescence-based protein expression from 11-month old archived and freshly-preserved cancer samples. Our data provide a more comprehensive understanding of cellular behavior in and around tumors, yielding new insights into disease progression, predictive biomarkers, and therapeutic responses.
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Spatially resolving the transcriptome and overlapping with proteomic markers from immunofluorescent staining on selected tissue sections provides a comprehensive and comparative view of the model system embryo at select stages of development. The Visium CytAssist technology gives researchers the ability to transfer target molecules from FFPE tissue sections to the Visium Spatial Gene Expression slide capture arrays.
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