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23 protocols using bnc 2110

1

Synchronizing Behavioral and Neurophysiological Data in VR

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Virtual position and time stamps were recorded on each frame of the VR scene, and a synchronizing TTL pulse was generated from an Arduino UNO and recorded in SpikeGLX using an auxiliary National Instruments data acquisition card (NI PXIe-6341 with NI BNC-2110). The time of each lick (identified by the breaking of an IR beam by the mouse tongue) was also synchronized to the neurophysiological data. Time stamps were adjusted to start at 0 and all behavioral data was interpolated to convert the variable VR frame rate to a constant frame rate of 50 Hz. Since the virtual 400 cm track was effectively infinite, recorded positions less than 0 or greater than 400 cm were converted to the appropriate position on the circular track. Trial transitions were identified as timepoints where the difference in position across time bins was less than −100 cm (i.e. a transition from ~400 cm to ~0 cm) and a trial number was accordingly assigned to each time point. Running speed for each time point was computed by calculating the difference in position between that time point and the previous, divided by the framerate (speed at the first time point was assigned to be equal to that at the second time point). Speed was then interpolated to fill removed time points and smoothed with a Gaussian filter (standard deviation 0.2 time bins).
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2

Microfluidic Worm Manipulation and Imaging

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Age-synchronized worms were washed off the plates and suspended in M9 solution, loaded in a 25 ml syringe barrel and injected in the microfluidic chip under air-pressurized flow (~30 psi). We interfaced all off- and on-chip hardware components to a desktop computer via a MATLAB-supported data acquisition board (BNC-2110, National Instruments). MATLAB (MathWorks, Natick, MA, U.S.A.) routines were custom-designed (available upon request) and contained five basic elements: waiting for worm’s entrance to the detection zone, worm confinement, confirmation of head-to-tail orientation, image acquisition and permission for the worm to exit before returning to the initial state. Image analysis was performed after the experiment was finalized.
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3

Extracellular Recording of Cerebellar Neurons

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Mice were implanted with an L-shaped bracket that was fixed onto the skull with bone screws and dental cement. A recording chamber was drilled in the skull on top of the cerebellum, surrounded with dental cement and covered with surgi-foam and bone wax. Single-unit neural activity was recorded extracellularly using a tungsten electrode (Thomas Recording, 2–3 MΩ), which was advanced into the cerebellum until either the Purkinje cell layer or the deep cerebellar nuclei were reached. Purkinje cells were identified by location, characteristic firing rate, the presence of complex spikes, and post-hoc histology. DCN neurons were identified by location, firing rate, and post-hoc histology. Signals were filtered (200 Hz–20 kHz) and amplified (20000x) on a custom built amplifier and then digitized (20 kHz) using a National Instruments BNC-2110. Waveforms were sorted offline using characteristics of the spikes such as amplitude and energy, as well as those determined by principal component analysis (Plexon).
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4

Axopatch 200B for Electrical Measurements

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Axopatch 200B (Molecular Devices LLC) was used for electrical measurements. A PCIe-6321 (controlled through a custom LabVIEW script (version 2016, National Instruments)) connected to a BNC 2110 (National Instruments) was used to digitize the output for IV measurements. Signal digitization was carried out using a Digidata 1440A (Molecular Devices LLC) for translocation experiments. Current traces were acquired at a sampling frequency of 250 kHz and lowpass filtered at 10 kHz using the in-built Bessel filter of the Axopatch 200B.
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5

Nanopore Conductance Measurement

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Two electrodes connected the two electrolyte chambers to an amplifier (Axopatch 200B, Molecular Devices), which applied voltage to the electrodes and recorded the resulting current signal from the system. The current signal was processed with a digitizer (Digidata 1440A, Molecular Devices) for the pore conductance tests (Figure 2d) or using a data acquisition board (BNC-2110, National Instrument) with a PCI card (PCI 6259, National Instrument). The data acquisition board was used for recapture experiments since the board allowed us to modulate the polarity of the applied voltage using LabVIEW script. The current data was acquired at 30 kHz sampling frequency and filtered by a 2 kHz Bessel filter. The recorded data was analyzed using a custom-made MATLAB (MathWorks, MA) code. The function of the 2 kHz Bessel filter was to achieve a higher signal-to-noise ratio, which also facilitated the detection of resistive pulses in the measured signal without any loss.
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6

Graphene Electrodes for Electrical Potential Recording

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The electrical potential was recorded by two identical graphene electrodes of the array. From the copper wires, the signal was delivered to a differential AC amplifier (A-M Systems, 1,700) at a 20-kHz sampling rate, where it received a × 100 gain and band-pass filter between 300 Hz and 5 kHz. Following amplification, the signal was processed using data acquisition board (NI, BNC-2110) and software (NI, Signal Express).
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7

Measuring Tonic and Evoked Currents in Electrophysiology Recordings

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Recordings were obtained using an Axon-patch 200B amplifier (Molecular Devices, San Jose, CA, USA), low-pass filtered at 5 kHz (Bessel, 8-pole) and digitized at 10 kHz with a National Instruments data acquisition board (BNC 2110, National Instruments, Austin, TX, USA). All data were acquired with EVAN (custom-designed LabView-based software).
Tonic current measurement. A custom written procedure (Wavemetrics, IGOR Pro 6.22A, Lake Oswego, OR, USA) was used to perform the analysis. An all-points histogram of a randomly selected recording segment of 10 s during the period of interest was plotted. A Gaussian was fitted to the part of the distribution from the minimum value at the left to the rightmost (largest) value of the histogram distribution. The mean of the fitted Gaussian was considered to be the tonic current (Itonic). This process was repeated for all segments of interest.
Evoked current measurement. Evoked currents were extracted from continuous current recording and baseline corrected. The measurement of amplitude and decay time is described in legend of Fig. S2.
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8

Zebrafish Larval High-Speed Escape Behavior

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High-speed videos were captured at 1000 frames per second (fps) with a frame resolution of 512 × 512 pixels using a FastCAM 1024 PCI high-speed camera (Photron, San Diego, CA). Larvae were filmed in a custom plexiglass enclosure with the camera and associated Fujinon 1:1.4/25 mm CF25HA1 lens (Fujifilm North America Corporation, Valhalla NY) mounted 8.25 cm below a 35 mm Petri dish containing eight to twelve larval zebrafish. Backlighting mounted above the larvae was provided by a CS420 constant current source LED array (Advanced Illumination, Rochester, VT). To evoke escape responses, we used brief vibration stimuli provided by a Mini-shaker 4810 (Brüel and Kjær, Denmark) attached to a titanium rod and platform that held the Petri dish of zebrafish larvae. The vibration was controlled by a Dell Quad Duo computer via a data acquisition card (PCI-6221; National Instruments, Austin, TX), connection block (BNC-2110; National Instruments, Austin, TX) and a Grass S48 Stimulator (Astro-Med, Inc., W. Warwick, RI).
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9

Optogenetic and Mechanical Hindpaw Stimulation

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All plantar hindpaw optogenetic stimulation experiments were performed using 470 nm light-emitting diode (LED) (M470F3, ThorLabs Inc.) controlled using an LED driver (LEDD1B, ThorLabs Inc.). Light was delivered to the plantar hindpaw using an optical fiber. The stimulated hindpaw was covered with the black aluminum foil to minimize light propagation beyond the stimulation target. The cannula of the optical fiber was glued using epoxy to the piezo-electric plate bender (CMBP09, Noliac Inc.) to allow interleaved mechanical and optical stimulation trials. The mechanical stimulation was done by poking the animal’s plantar hindpaw with the optical fiber’s cannula by actuating the piezo-electric plate bender via an amplifier. An example of the stimulation waveform parameters is shown in Fig. 6b.
Imaging and opto-mechanical stimulation were controlled and synchronized using either an OpenEphys or National Instruments (NI BNC-2110, NI PCI-6713 and USB-6008 for emCCD and BNC-2110 with PCIe-6353) data acquisition boards operated via MATLAB R2015b and OpenEphys software v0.5.5.3.
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10

Measuring Individual Finger Forces Using Piezoelectric Sensors

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Four unidirectional piezoelectric sensors (model 208C02, PCB Piezotronics, Depew, NY) were used to measure the force produced by individual fingers. The sensors were attached with threaded rods to the slots in the top plate of the frame of the experimental device (suspension device, Figure 1A). This configuration allowed vertical adjustments in a range of 40 mm. The slots were placed 30 mm apart in the mediolateral direction and allowed adjustments in the finger longitudinal direction in a range of 150 mm. Both vertical and longitudinal adjustments could be made to accommodate individual differences in finger anatomy. A loop of aircraft cable was suspended from each sensor; the bottom end of the loop was covered in rubber to allow for comfortable finger placement. A hand fixation system was used to stabilize the palm of the hand to ensure a constant hand configuration throughout the experiment (Fig. 1B). A 20″ monitor was located 0.6 m from the subject’s head at eye level, to set tasks and provide visual feedback on their performance.
The signals from each sensor were sent through a signal conditioner (PCB, model 484B06) to a 16-bit analog-to-digital converter (BNC 2110; National Instruments). A LabVIEW-based software (National Instruments, Austin, TX) was developed to display visual feedback and record the force signals from individual fingers at 1000 Hz.
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