3D Imaging:
- Monitoring 3D neural activity at large scale
- Simultaneous Multi-plane Imaging of Neural Circuits
- Instantaneous Three-dimensional Sensing Using Spatial Light Modulator Illumination with Extended Depth of Field Imaging
- Simultaneous imaging of neural activity in three dimensions
Caged Compounds: (Press Release)
- Two-Photon Optical Interrogation of Individual Dendritic Spines with Caged Dopamine
- RuBi-4 AP: Two-Photon Uncaging of Neurochemicals Using Inorganic Metal Complexes
- “Photorelease of GABA With Visible Light Using an Inorganic Caging Group
- Press Release
- Purchase: Tocris | Ascent
- RuBi-Glutamate: Two-Photon and Visible-Light Photoactivation of Neurons and Dendritic Spines
- Press Release
- Purchase: Tocris | Ascent
- General RuBi-Instructions
- RuBi-Nicotine – Purchase: Ascent
Circuit Cracking Software (Unsupported):
- Imaging Scripts for ImageJ -github
- Population Inference for MATLAB -github
Cluster Analysis:
- Cortical area and species differences in dendritic spine morphology
- Quantitative Morphologic Classification of Layer 5 Neurons from Mouse Primary Visual Cortex
- Origin and Classification of Neocortical Interneurons
- Dendritic Size of Pyramidal Neurons Differs among Mouse Cortical Regions
- Correlation Between Axonal Morphologies and Synaptic Input Kinetics of Interneurons
- Petilla terminology: nomenclature of features of GABAergic interneurons of the cerebral cortex
- Quantitative classification of somatostatin-positive neocortical interneurons identifies three interneuron subtypes
- Comparison Between Supervised and Unsupervised Classifications of Neuronal Cell Types: A Case Study
Genegun Transfection in Mouse Slice Cultures:
Imaging Action Potentials in Neuronal Populations:
Imaging Spines:
Optical Probing of Circuits:
- Direct Multiphoton Stimulation of Neurons and Spines
- Optical Probing of Neuronal Circuits with Calcium Indicators
- Reverse Optical Probing (ROPING) of Neocortical Circuits
- Two-Photon Photostimulation and Imaging of Neural Circuits
Machine Learning and Graph Theory (Conditional Random Fields)
Microelectrode Arrays:
SHG Imaging of Voltage:
- Second harmonic imaging of membrane potential of neurons with retinal
- Imaging membrane potential in dendritic spines
- Second Harmonic Generation in Neurons: Electro-Optic Mechanism of Membrane Potential Sensitivity
- Second-Harmonic Generation Imaging of Membrane Potential with Photon Counting
- Imaging Voltage in Neurons
SLM Microscopy:
- SLM Microscopy: Scanless Two-Photon Imaging and Photostimulation Using Spatial Light Modulators
- Portable Scanless Microscope: Two- and One-photon Imaging and Photostimulation with Spatial Light Modulators
- A portable laser photostimulation and imaging microscope
- Photons, neurons, and wellbeing
- Scanless linear and nonlinear laser microscopy
Software (unsupported):
- NTC Github (https://github.com/NTCColumbia)
- MOCO (https://github.com/NTCColumbia/moco)
- CNMF (https://github.com/NTCColumbia/ntc_CNMF)
- Caltracer 3 Beta (download zip)
- Please report bugs or feature requests for Caltracer 3 Beta to Ben Shababo: [email protected]
- Josh Vogelstein’s github
- Fast Spike Inference (foopsi)
- SMC Spike Inference (smc-oopsi)
- Caltracer 2.5 (download zip)
- moco: Fast Motion Correction for Calcium Imaging (download zip)
- Please report bugs or feature requests for moco to James Guevara: [email protected]
- Intrinsic E Phys Tests (download zip)
- VovAN_Fluoview (download zip)
- Calcium Source Extraction
