Cerebrospinal fluid (CSF) is integral to brain architecture, providing mechanical and nutritional support to the tissue while clearing metabolic waste. Recent research reveals its potential role in neuromodulation through its transport of various signaling molecules. Yet, to what extend CSF impacts the direct delivery of such molecules is poorly understood. CSF circulation is tightly regulated by a combination of factors such as cardiac activity, glial regulation, and notably, ciliary beating of ependymal cells lining the brain ventricles. Ciliary dysfunction, as observed in ciliopathies, often results in hydrocephalus, underscoring the significance of ciliary activity in CSF dynamics. Experimental evidence suggests that disruptions in CSF flow can significantly alter neuronal excitability, though the precise mechanisms remain unclear. To understand the impact of ciliary dysfunction on the mature brain, we combine metabolomic and behavior analyses of various ciliary mutant zebrafish models. First, we adapted the spatially-resolved mass spectrometry technique MALDI-TOF for the zebrafish brain to investigate the metabolomic landscape of the brain and identify how perturbations to CSF flow impact the distribution of molecules of interest within the brain structures. Second, we are performing behavior analyses on freely-swimming mutant and control animals across various paradigms, such as startle reflex, adaptation, and sleep-wake behavior. By coupling our metabolomic findings with behavioral data, our goal is to elucidate the impact of CSF flow on brain activity and identify the underlying molecular mechanisms.