Context-explorer: Analysis of spatially organized protein expression in high-throughput screens
Fig 3
Quantification of radial expression trends.
A) Comparison of SOX2 expression between cells growing inside and outside of colonies in microcontact-printed wells. B) Cells from multiple colonies at similar locations within their respective colony are aggregated together in bins according to a hexagonal grid system. The heatmap is colored by the desired measure of variation or central tendency. C) Multiple colonies of hPSCs are aggregated to reveal general tendencies in the spatial protein expression pattern of SOX2 (left). Each bin shows the mean expression of cells from multiple colonies. Trends are visualized as line plots, where joint data points represent the mean intensity of cells at each distance bin throughout the colony (right). Error bars represent 95% confidence intervals between cells from the same location in different colonies. D) Hexagonally binned cells in triangular hPSC colonies (left). Cells grouped in concentric bins according to their distance from the colony centroid (middle) or to the closest colony edge (right). The color is used for illustration purposes to distinguish bins from each other. E) Visualization of the Sox2 expression levels in the hexagonal bins (left) and the concentric bins (middle). The number of cells per bin for the different concentric binning strategies (right).