Fig. 1S2

Fig. 1S2 Registering 3D zebrafish images.

(A) Iterative shape averaging (ISA) is used to generate an average unstained reference fish (URF) for each developmental stage of interest from 5–7 wild-type embryos. Left: 2 dpf reference fish following initial alignment with a rigid transform. Right: 2 dpf reference fish after the final deformable B-spline transform. (B) Alignment of probe reference fish (PRF) to URF. Left: the URF alone (green). Center: the URF (green) with rigid alignment of PRF (magenta). Right: the URF (green) with final affine alignment of PRF (magenta). (C) Alignment of individual WISH-stained embryos to the PRF. Left: the 2 dpf PRF for tyrosine hydroxylase (th; green). Center: the PRF (green) and a second th-stained embryo (magenta) aligned using deformable registration. Areas of overlap show up as white. Right: an averaged 3D th expression pattern from 10 separate wild-type embryos.