Extended Data Fig. 2: Coverage, registration, and anatomical segregation of brain-wide imaging data.
From: Multiple convergent hypothalamus–brainstem circuits drive defensive behavior
a, All z-planes functionally imaged in a single Tg(elavl3:H2B-GCaMP6s) fish - 14 z-planes, 15 µm separation, 2 volumes/second. All N = 8 fish were imaged with the same x/y/z-sampling. b, Example z-planes from N = 6 fish, after registration to a common volume. Fish were registered to a common ‘bridge’ brain; the standard Tg(elavl3:H2B-RFP) brain from the Z-Brain atlas (along with atlas masks) were registered to this bridge brain, to allow for anatomical region analysis. c, Example z-planes from a single fish, with a subset of overlaid anatomical regions from the registered Z-Brain atlas. The same regions were aligned to each of the N = 8 fish. d, Step-by-step protocol for registering each recorded brain to a common volume, and assigning recorded neurons to brain regions in the Z-brain atlas.
