Journal: bioRxiv

Article Title: Closed-loop automated reaching apparatus (CLARA) for interrogating motor systems

doi: 10.1101/2021.03.01.433419

Figure Lengend Snippet: A) Example images of a reach and experimental timeline. Successful trials require the pellet to be carried inside the behavior box (top image) while all other results are classified as failures (bottom). Green pseudo-color denotes pellet location. B) Mice trained by the CLARA system (purple) achieve similar rates of success to manually trained animals (green). Bar graph represents average reaching performance per mouse over all days (t=0.999, p=0.3327, unpaired t-test). C) Mice trained by the CLARA system attempt a similar number of reaches to manually trained mice. Bar graph represents average number of attempts per mouse over all days (t=0.758, p=04593, unpaired t-test). Error bars denote standard error.

Article Snippet: During a cortical recording, the Arduino on the CLARA system delivered a TTL pulse to the Digital Lynx recording system (NeuraLynx) for each camera frame recorded ( ).

Techniques:

Journal: bioRxiv

Article Title: Closed-loop automated reaching apparatus (CLARA) for interrogating motor systems

doi: 10.1101/2021.03.01.433419

Figure Lengend Snippet: A) Schematic of a chronic extracellular recording electrode implant location. B) CLARA can deliver frame locked TTL triggers to recording hardware (top) to allow neural activity to be matched to individual frames (bottom). Black dashes in bottom image represent frame triggers. C) Example of maximum reach extension timepoints in a trajectory. Grey dots denote max extension, the green circle represents pellet center, and the multicolored line represents mean outward trajectory. D). Example raster plots of a movement related (right) and non-movement related (left) neuron around reach maximum (Time 0). Each trial represents a reach attempt. E) Heatmap of normalized mean firing rate around reach maximum (blue line) for all Non-movement (top) and movement (bottom) related neurons. Dark color denotes low FR while light color denotes high FR.

Article Snippet: During a cortical recording, the Arduino on the CLARA system delivered a TTL pulse to the Digital Lynx recording system (NeuraLynx) for each camera frame recorded ( ).

Techniques: Activity Assay

Journal: Neurophotonics

Article Title: Quantitative hemodynamic imaging: a method to correct the effects of optical properties on laser speckle imaging

doi: 10.1117/1.NPh.10.4.045001

Figure Lengend Snippet: Overall schematic of the QHI system. (a) Hardware setup of QHI with LSI and SFDI components [AL, aspheric lens; AcL, achromatic lens; CL, condenser lens; D, diffuser; DMD, digital micromirror device; F, appropriate notch (for SFDI) and line filters (for LSI) at LSI wavelength, IL, imaging lens with spacers; L, plano-convex lens; LED, light emitting diode; LPDM, long-pass dichroic mirror; P, linear polarizer (cross-polarized between illumination and detection arms); and SPDM, short-pass dichroic mirror]. (b) Triggering scheme of the system where the computer sends a serial trigger to activate an automatic Arduino triggering scheme for the LED and the DMD. The electrical output of the DMD was then used to trigger the camera. The exposure time was set to 10 ms with a 20 ms period per full cycle, allowing for an effective 50 Hz raw frame rate. The Arduino triggering scheme can be deactivated with another serial trigger from the computer.

Article Snippet: We controlled the LEDs using dedicated drivers (LEDD1B, Thorlabs, New Jersey, United States) with triggering signals from an Arduino Uno (1050-1024-ND, Digi-Key Electronics, Minnesota, United States).

Techniques: Imaging