The project made use of high-resolution microscopy to study how protein aggregates are cleared from the brain. We studied this with different levels of biological complexity, ranging from single-molecule imaging of individual protein aggregates to in vivo clearance experiments where we quantified cerebrospinal fluid flow and the drainage of protein aggregates from tissue into cerebrospinal fluid. We studied the dynamics of aquaporin-4 arrays, which are involved in cerebrospinal fluid circulation, and found that the array size and mobility is tuned by adrenergic signalling and osmotic changes. We also studied how aggregates with different structural features induce toxicity in cells, and we found striking differences in toxicity pathways arising from structural changes in the protein aggregate. Among those toxicity pathways, we particularly focused on the interactions of amyloid-beta with two receptors: TLR4 and PirB. We found that TLR4 inhibition can rescue most of the toxic effects of amyloid-beta aggregates. To study the clearance of extracellular solutes from the brain, we developed a method to trace flow of cereborspinal fluid in the brain using nanoparticles. This allowed us to quantify properties of perivascular flow and the circulation of cerebrospinal fluid in the brain parenchyma.