KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Bacterial and Virus Strains | ||
| AAV9.Syn.GCaMP6s.WPRE.SV40 | Chen et al. Nature 2013 | Addgene #100843 |
| AAV9.CamKII0.4.Cre.SV40 | James M. Wilson | Addgene #105558 |
| AAV9.CAG.Flex.GCaMP6f.WPRE.SV40 | Chen et al. Nature 2013 | Addgene #100835 |
| AAV9.CAG.Flex.GCaMP6s.WPRE.SV40 | Chen et al. Nature 2013 | Addgene #100842 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Biotinylated dextran (3,000 MW) | Invitrogen | D7135 |
| Hydrogen peroxide solution (3%) | Sigma-Aldrich | CAS: 7722–84-1 |
| DAB (3,3’-Diaminobenzidine) | Sigma-Aldrich | CAS: 91–95-2 |
| Osmium tetroxide solution (2%) | Sigma-Aldrich | CAS: 20816–12-0 |
| Uranyl Acetate | Electron Microscopy Sciences | RT 22400 |
| EMbed-812 | Electron Microscopy Sciences | RT 14120 |
| Toluidine Blue | Electron Microscopy Sciences | RT 22050 |
| Lead Citrate | Electron Microscopy Sciences | RT 22410 |
| Critical Commercial Assays | ||
| Vectastain ABC Kit | Vector Laboratories | PK-4000 |
| Experimental Models: Organisms/Strains | ||
| Zebra finch (Taeniopygia guttata) | Magnolia Bird Farm, Anaheim, CA | N/A |
| Software and Algorithms | ||
| ImageJ | NIH | https://imagej.nih.gov/ij |
| Matlab | MathWorks | https://www.mathworks.com/products/matlab.html |
| Markov Chain Monte Carlo deconvolution | Picardo et al., Neuron 2016 | https://www.sciencedirect.com/science/article/pii/S0896627316001094?via%3Dihub |
| RPvdsEx | Tucker-Davis Technologies | http://www.tdt.com/rpvdsex.html |
| ScanImage | Vidrio Technologies | ScanImage 4.2 (2015) |
| KiloSort spike sorting software | Pachitariu et al., biorxiv 2016 | https://github.com/cortex-lab/KiloSort |
| HVC network model | This paper | https://psu.box.com/s/55gh5tjgpvcxikel4wjfkzxdwyc0s7x4 |
| Other | ||
| Intracellular recording amplifier | Molecular Devices | Axoclamp 700-B |
| Digital acquisition board | Molecular Devices | Digidata 1550 |
| High-density silicon probe (with integrated headstage) | Diagnostic Biochips | 128–5 integrated |
| Chronic microdrive | Neuronexus | dDrive-xL |
| Assisted Fiber-optic & Electric Rotary Joint | Doric Lenses | AHRJ-OE_FC_AD_12_HARW |
| Omnetics cable adapter | Doric Lenses | ADAPTER_HO12 |
| Acquisition board | Intan Technologies | RHD Recording Controller (512 channels) |
| Stimulus generator | A-M Systems | Model 2100 |
| Omnidirectional microphone | Audio-Technica | AT803 |
| Audio amplifier | Presonus | Studio Channel |
| Digital signal processor | Tucker-Davis Technologies | RX8 |
| Resonant scanner | Thorlabs | N/A |
| Movable Objective Microscope | Sutter Instrument Company | N/A |
| 16x water immersion objective | Nikon | MRP-07220 |
| Transmission electron microscope | FEI | Philips CM-12 |
| Digital camera for electron microscopy (4k x 2.7k) | Gatan Inc. | N/A |
| Brightfield microscope | Zeiss | AxioObserver Inverted |