KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Sheep anti-Tyrosine hydroxylase | abcam | Ab113 |
| Rabbit anti-Active Caspase −3 | BD Biosciences | AB_397274 |
| DAPI (4′,6-diamidino-2-phenylindole) | VWR | 89139-054 |
| Donkey anti-Sheep Alexa Fluor 647 | ThermoFisher Scientific | A-21448 |
| Goat anti-Rabbit Alexa Fluor 647 | ThermoFisher Scientific | A-21245 |
| Chemicals, peptides, and recombinant proteins | ||
| (R,S)-Ketamine Hydrochloride | Covetrus | 071069 |
| 40% Acrylamide | Bio-Rad | 1610140 |
| 2% Bisacrylamide | Bio-Rad | 1610142 |
| VA-044 | Wako Chemicals | NC0632395 |
| Paraformaldehyde | Electron Microscopy Sciences | 15710-S |
| Boric Acid | Sigma-Aldrich | B7901 |
| Sodium dodecyl sulfate | Amresco | 0837 |
| RapiClear RI = 1.47 | SunJin lab | RC147002 |
| Methanol | Fisher Scientific | AC423950040 |
| Dichloromethane | Sigma-Aldrich | 270997 |
| Hydrogen peroxide | Sigma-Aldrich | 216763 |
| Dibenzyl ether | Sigma-Aldrich | 33630 |
| Donkey serum | Millipore Sigma | D9663 |
| Bovine serum albumin | Fisher Scientific | BP1600-100 |
| Triton X-100 | Sigma-Aldrich | T8787 |
| Dimethyl sulfoxide | Sigma-Aldrich | 472301 |
| Glycine | Sigma-Aldrich | G7126 |
| 4 – hydroxytamoxifen | Sigma-Aldrich | H7904 |
| Sodium chloride | Sigma-Aldrich | S9625 |
| Corn oil | Sigma-Aldrich | C8267 |
| 20x SSC, RNase-free | ThermoFisher Scientific | AM9765 |
| Acetic anhydride | Millipore Sigma | 320102 |
| Formamide deionized | Millipore Sigma | S4117 |
| Yeast tRNA | Fisher Scientific | AM7119 |
| Dextran sulfate | Millipore Sigma | 265152 |
| Citric acid | Sigma-Aldrich | 251275 |
| Tween 20 | Sigma-Aldrich | P9416 |
| PBS - Phosphate-Buffered Saline (10X) pH 7.4, RNase-free | ThermoFisher Scientific | AM9624 |
| Experimental models: Organisms/strains | ||
| TH-2a-CreER | David Ginty’s lab; Abraira et al.41 | TH-2a-CreER |
| B6; 129S6-Gt(ROSA)26Sortm14(CAG-tdTomato)Hze/J (Ai14) | The Jackson Laboratory | Strain #:007908 |
| Oligonucleotides | ||
| HCR Amplifier: B1, Alexa 647 | Molecular Instruments | N/A |
| HCR Probes for Tyrosine Hydroxylase mRNA detection | IDT | See Table S1 |
| Software and algorithms | ||
| Python 3.7 | Python Software Foundation | https://www.python.org/ |
| ImageJ | NIH | https://imagej.net/ij/index.html |
| Terastitcher | Bria et al.46 | https://abria.github.io/TeraStitcher/ |
| Bigstitcher | David Hörl et al.47 | https://imagej.net/plugins/bigstitcher/ |
| ITK | Kitware, Inc | https://itk.org/ |
| suiteWB | This study | https://github.com/tomerlab/suiteWB |
| Napari | Chan Zuckerberg Initiative | https://napari.org/stable/index.html |
| Amira | Thermo Fisher Scientific | https://www.thermofisher.com/us/en/home/electron-microscopy/products/software-em-3d-vis/amira-software.html |
| MATLAB | Mathworks | https://www.mathworks.com/products/matlab.html |
| suiteWB | This study | https://doi.org/10.5281/zenodo.10067746 |