Data for: Revealing intact neuronal circuitry in centimeter-sized formalin-fixed paraffin-embedded brain

Tissue clearing and labeling techniques have revolutionized brain-wide
imaging and analysis, yet their application to clinical formalin-fixed
paraffin-embedded (FFPE) blocks remains challenging. We introduce
HIF-Clear, a novel method for efficiently clearing and labeling
centimeter-thick FFPE specimens using elevated temperature and
concentrated detergents. HIF-Clear with multi-round immunolabeling reveals
neuron circuitry regulating multiple neurotransmitter systems in a whole
FFPE mouse brain, and is able to be used as the evaluation of disease
treatment efficiency. HIF-Clear also supports expansion microscopy and can
be performed on a non-sectioned 15-year-old FFPE specimen, as well as a
3-month formalin-fixed mouse brain. Thus, HIF-Clear represents a feasible
approach for researching archived FFPE specimens for future
neuroscientific and 3D neuropathological analyses.