Details for Peter_MS10_170314_163038
Date & time: 2017-03-14, 16:30:28
Location: Alexandria
Animal subject: MS10
Investigator: Peter Petersen
Experimenters: Peter Petersen
Project: Brain temperature affects quantitative features of hippocampal sharp wave ripples, Theta rhythm perturbation by focal cooling of the septal pacemaker in awake rats
Data repositories: NYUshare_Datasets, download session from Web share
Created: 2018-10-27 12:38:52 by Peter Petersen
Updated: 2022-04-12 15:39:04 by Peter PetersenNotes:
recordingID 62
Epochs
| Epochs | Behavioral paradigm | Maze type | Built maze | Manipulation | Duration | Notes |
|---|---|---|---|---|---|---|
| Peter_MS10_170314_163038 | ThetaMaze_AlternativeRunning | Theta maze | Theta_Maze_Peter | Thermal perturbation | 1696.644 |
Extracellular
Equipment |
File format |
Sampling rate |
nSamples |
nChannels |
Spike groups |
Least significant bit |
|---|---|---|---|---|---|---|
| Intan Technologies, RHD2000 USB interface board (256ch) | dat | 20000 | 33932900 | 64 | 6 | 0.195 |
Implanted probes
MS10 : Silicon probe NeuroNexus Buzsaki 5×12 (64 ch, 5 shanks, staggered Non-uniform) | Region: HIP | Coordinates: -3.3, -2.5, 1.6
Spike groups
Spike groups are typically defined by the group of channels within shanks. Channels are listed and comma-separated and labels can further be assigned to each group. Channels are 0-indexed.
Group |
Channels |
Label |
|---|---|---|
| 1 | 50, 57, 49, 58, 52, 55, 51, 56, 54, 53 | |
| 2 | 60, 37, 59, 35, 62, 34, 61, 64, 63 | |
| 3 | 38, 44, 39, 48, 41, 47, 42, 46, 43, 45 | |
| 4 | 40, 36, 30, 23, 22, 21 | |
| 5 | 27, 6, 29, 5, 4, 3, 1, 2 | |
| 6 | 17, 18, 19, 20 |
This section is dedicated to extra inputs besides the primary recording channels. For extracellular recordings this includes any extra analog and digital channels. Further it can be inputs saved with an Arduino or Raspberry pi or an entirely different hardware solution.
Equipment |
Input type |
Channel |
Tag |
Description |
|---|---|---|---|---|
| Intan Technologies, RHD2000 USB interface board (256ch) | aux | 4 | Temperature | MS temperature probe |
| Intan Technologies, RHD2000 USB interface board (256ch) | adc | 1 | WheelPosition | Running wheel |
| Intan Technologies, RHD2000 USB interface board (256ch) | dig | 1 | OptitrackSync | TTL sync |
| Intan Technologies, RHD2000 USB interface board (256ch) | dig | 3 | BaslerSync | TTL sync |
| Intan Technologies, RHD2000 USB interface board (256ch) | dig | 5,6,7,8 | ArduinoRemote | Remote Button A-D |
| Intan Technologies, RHD2000 USB interface board (256ch) | aux | 1,2,3 | Accelerometer | Head mounted accelerometer |
| Intan Technologies, RHD2000 USB interface board (256ch) | adc | 3 | ch_opto_on | |
| Intan Technologies, RHD2000 USB interface board (256ch) | adc | 4 | ch_opto_off | |
| dig | 3 | ch_camera_sync |
Equipment |
File names |
Epoch |
Type |
Framerate |
Notes |
|---|---|---|---|---|---|
| Intan Technologies, RHD2000 USB interface board (256ch) | Take 2017-03-14 04.30.41 PM.csv | 1 | Head position | 120 | |
| Point Grey, Chameleon3 1.3 MP Color USB3 Vision (ON Semi PYTHON 1300) | Basler acA1300-200uc (21965891)_20170314_163044563.avi | 1 | Video | 10 |
Brain regions are defined according to the Allen Institute Atlas. A brain region can be assigned to a list of channels or spike groups.
Brain region |
Channels |
Spike groups |
|---|---|---|
| CA1 – Field CA1 (View in Atlas) | 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64 |
Channel tags
Examples and reserved tags: Bad, Good, Theta, Gamma, Delta, Ripple, RippleNoise.
Tag |
Channels |
Spike groups |
|---|---|---|
| Theta | 47 | |
| Cortical | 6 | |
| Ripple | 38 | 3 |
| Bad | 28, 25, 26, 33, 24, 32, 31 | 6 |
| RippleNoise | 19 | |
| GammaPhaseCoupling | 53 | 1 |
Analysis tags
Tag |
Value |
Description |
|---|---|---|
| OptiTracktracking_offset | 5,-5,0 | |
| linear_track_slope | 10,-10,0 | degrees of incline of linear track |
| CoolingSession | 1 | |
| pos_x_limits | -70,240 | |
| pos_y_limits | -30,30 | |
| cooling_onsets | ||
| cooling_offsets | ||
| time_frame | 0,1690 |
Spike sorting
Method |
Format |
Relative path |
Channels |
Spike sorter |
Notes |
Sorting completed |
Units count |
Sorting ID |
|---|---|---|---|---|---|---|---|---|
| KiloSort | Phy | Kilosort_2017-04-19_131428 | 1:128 | Peter Petersen | Yes | 32 | 18349 |
Spike sorted units
| # | Spike count | Firing rate (Hz) | Spike group | Brain region | Cell type | Deep/Superficial | Refractory violation (‰) | Peak voltage (µV) | Trough-to-Peak (ms) | Isolation distance | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 5187 | 3.0662277710679 | 4 | CA1 | Pyramidal Cell | Unknown | 4.2413726624253 | 102.17049671989 | 0.7 | ||
| 2 | 2693 | 1.5879284418003 | 4 | CA1 | Wide Interneuron | Unknown | 3.3419977720015 | 70.36930956944 | 0.69 | ||
| 3 | 1969 | 1.1623089476804 | 4 | CA1 | Wide Interneuron | Unknown | 10.157440325038 | 50.087756165669 | 0.64 | ||
| 4 | 4667 | 2.7663560132441 | 4 | CA1 | Pyramidal Cell | Unknown | 2.9997857295907 | 221.58205366153 | 0.71 | ||
| 5 | 1752 | 1.0409481492854 | 4 | CA1 | Wide Interneuron | Unknown | 1.7123287671233 | 221.88952830329 | 0.71 | ||
| 6 | 6018 | 3.5481923587219 | 5 | CA1 | Pyramidal Cell | Unknown | 11.797939514789 | 77.309071441048 | 0.64 | ||
| 7 | 239 | 0.14163432139767 | 5 | CA1 | Wide Interneuron | Unknown | 0 | 56.358571597704 | 0.46 | ||
| 8 | 2401 | 1.4168583841488 | 3 | CA1 | Pyramidal Cell | Unknown | 6.6638900458142 | 66.403103648622 | 0.7 | ||
| 9 | 4190 | 2.4698188432088 | 4 | CA1 | Pyramidal Cell | Unknown | 4.0572792362768 | 106.19970544664 | 0.68 | ||
| 10 | 95 | 0.056092635984566 | 3 | CA1 | Wide Interneuron | Unknown | 0 | 52.638688826856 | 0.57 | ||
| 11 | 2789 | 1.6456940494854 | 3 | CA1 | Pyramidal Cell | Unknown | 16.493366798136 | 44.773261225758 | 0.73 | ||
| 12 | 1488 | 0.87788548066501 | 5 | CA1 | Pyramidal Cell | Unknown | 2.0161290322581 | 57.406053423336 | 0.62 | ||
| 13 | 4201 | 2.477072778061 | 4 | CA1 | Wide Interneuron | Unknown | 4.0466555582004 | 97.587777605641 | 0.67 | ||
| 14 | 1393 | 0.82156937503135 | 5 | CA1 | Pyramidal Cell | Unknown | 10.768126346016 | 54.036737018741 | 0.63 | ||
| 15 | 1730 | 1.0202271231981 | 3 | CA1 | Pyramidal Cell | Unknown | 1.1560693641618 | 74.900296606134 | 0.6 | ||
| 16 | 3025 | 1.7845004777594 | 2 | CA1 | Pyramidal Cell | Unknown | 10.578512396694 | 56.898225329834 | 0.6 | ||
| 17 | 5187 | 3.0662277710679 | 4 | CA1 | Pyramidal Cell | Unknown | 4.2413726624253 | 100.75872108784 | 0.68 | ||
| 18 | 2693 | 1.5879284418003 | 4 | CA1 | Wide Interneuron | Unknown | 3.3419977720015 | 70.056003181846 | 0.68 | ||
| 19 | 1969 | 1.1623089476804 | 4 | CA1 | Wide Interneuron | Unknown | 10.157440325038 | 51.19287116673 | 0.69 | ||
| 20 | 4667 | 2.7663560132441 | 4 | CA1 | Pyramidal Cell | Unknown | 2.9997857295907 | 221.75784714775 | 0.71 | ||
| 21 | 1752 | 1.0409481492854 | 4 | CA1 | Wide Interneuron | Unknown | 1.7123287671233 | 221.3179614679 | 0.74 | ||
| 22 | 4190 | 2.4698188432088 | 4 | CA1 | Pyramidal Cell | Unknown | 4.0572792362768 | 108.53947719319 | 0.69 | ||
| 23 | 2401 | 1.4168583841488 | 3 | CA1 | Pyramidal Cell | Unknown | 6.6638900458142 | 68.94801728323 | 0.69 | ||
| 24 | 239 | 0.14163432139767 | 5 | CA1 | Wide Interneuron | Unknown | 0 | 56.424663906422 | 0.46 | ||
| 25 | 95 | 0.056092635984566 | 3 | CA1 | Wide Interneuron | Unknown | 0 | 52.693345849669 | 0.57 | ||
| 26 | 6018 | 3.5481923587219 | 5 | CA1 | Pyramidal Cell | Unknown | 11.797939514789 | 74.539975103836 | 0.69 | ||
| 27 | 2789 | 1.6456940494854 | 3 | CA1 | Pyramidal Cell | Unknown | 16.493366798136 | 43.98433164398 | 0.65 | ||
| 28 | 1488 | 0.87788548066501 | 5 | CA1 | Pyramidal Cell | Unknown | 2.0161290322581 | 58.855611442317 | 0.64 | ||
| 29 | 4201 | 2.477072778061 | 4 | CA1 | Wide Interneuron | Unknown | 4.0466555582004 | 98.787540447933 | 0.64 | ||
| 30 | 1393 | 0.82156937503135 | 5 | CA1 | Pyramidal Cell | Unknown | 10.768126346016 | 52.605173490612 | 0.65 | ||
| 31 | 1730 | 1.0202271231981 | 3 | CA1 | Pyramidal Cell | Unknown | 1.1560693641618 | 73.920355301533 | 0.59 | ||
| 32 | 3025 | 1.7845004777594 | 2 | CA1 | Pyramidal Cell | Unknown | 10.578512396694 | 59.570109452732 | 0.65 |