Figure 8. Scatter and distribution plots of analytes with compartment-specific and unresolved subcellular distributions.

Analytes with compartment-specific distributions were identified using a classification tree based assignment (Figure 6). Analytes with insufficiently explained subcellular distribution were grouped according to k-medoids clustering (Figure S4A). For visualization, Manhattan distances among analytes for each of the three independent gradients were averaged and then converted into a principal coordinates (PCo) space. Analytes were color-coded according to their cluster membership. For each identified cluster the distribution of members throughout the gradients (grey lines) and the robust average distribution including standard deviations (black lines) are depicted as line plots. Despite the overlap of the intermediate clusters with the resolved compartments, recurring and stable distribution patterns have been observed.