Extended Data Fig. 9. 3D super-resolution reconstructions of immunofluorescence-labeled ChR2-EYFP on dendrites using INSPR and phase retrieval method based on beads embedded in agarose gel in biplane setup.

(a) x-y overview of the super-resolution volume of immunofluorescence-labeled ChR2-EYFP on dendrites resolved by INSPR, with a depth of 11 μm from the coverslip. (b–e) x-z slices along the white and magenta dashed lines in (a), reconstructed using INSPR (b,d) and phase retrieval method based on beads embedded in agarose gel (PR in gel, c,e). (f) Intensity profiles along the white dashed lines in (d,e), showing the difference between reconstructions using INSPR (red dash-dot lines) and PR in gel (blue solid lines). (g) x-y overview of the super-resolution volume of immunofluorescence-labeled ChR2-EYFP on dendrites resolved by INSPR, with a depth of 7 μm from the coverslip. (h–k) x-z slices along the white and magenta dashed lines in (g), reconstructed using INSPR (h,j) and PR in gel (i,k). (l) Intensity profiles along the white dashed lines in (j,k), showing the difference between reconstructions using INSPR (red dash-dot lines) and PR in gel (blue solid lines). The integration width of the x-z slices in (b–e, h–k) in the y direction is 200 nm. These experiments are performed twice and both of them are shown here. Norm.: normalized.