Details for Peter_MS12_170716_172307_concat

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  • Date & time: 2017-07-16, 17:23:07

  • Location: Alexandria

  • Animal subject: MS12

  • 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: 2019-01-18 15:24:42 by Peter Petersen ADMIN
    Updated: 2022-04-12 15:41:52 by Peter Petersen

  • Notes:
    recordingID = 80

Epochs

Epochs Behavioral paradigm Maze type Built maze Manipulation Duration Notes
Peter_MS12_170716_172307 Homecage_Sleep Homecage Homecage_Rat 7003.62
Peter_MS12_170716_193348 ThetaMaze_AlternativeRunning Theta maze Theta_Maze_Peter Thermal perturbation 9319.5
Peter_MS12_170716_201551 Homecage_Sleep Homecage Homecage_Rat 13151.772
Peter_MS12_170716_212059 Homecage_Sleep Homecage Homecage_Rat 19233.072

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit

Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 384661000 128 12 0.195

Implanted probes

MS12 : #1 Silicon probe NeuroNexus Buzsaki 5×12 (64 ch, 5 shanks, staggered Non-uniform) | Region: HIP | Coordinates: -3.3, 2.5, -1.6
MS12 : #2 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 51, 58, 52, 57, 49, 60, 50, 59, 54, 55, 53, 56
2 63, 38, 64, 39, 61, 41, 62, 42, 33, 37, 34, 35
3 47, 17, 46, 20, 45, 19, 43, 21, 48, 18, 44, 22
4 28, 1, 25, 2, 23, 3, 24, 4, 27, 31, 29, 32
5 8, 13, 7, 14, 6, 15, 5, 16, 9, 12, 10, 11
6 30, 36, 26, 40
7 115, 122, 116, 121, 113, 124, 114, 123, 118, 119, 117, 120
8 127, 102, 128, 103, 125, 105, 126, 106, 97, 101, 98, 99
9 111, 81, 110, 84, 109, 83, 107, 85, 112, 82, 108, 86
10 92, 65, 89, 66, 87, 67, 88, 68, 91, 95, 93, 96
11 72, 77, 71, 78, 70, 79, 69, 80, 73, 76, 74, 75
12 94, 100, 90, 104
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 2 BaslerSync TTL sync
Intan Technologies, RHD2000 USB interface board (256ch) dig 5 ArduinoRemoteCh1 Remote Button A
Intan Technologies, RHD2000 USB interface board (256ch) dig 6 ArduinoRemoteCh2 Remote Button B
Intan Technologies, RHD2000 USB interface board (256ch) dig 7 ArduinoRemoteCh3 Remote Button C
Intan Technologies, RHD2000 USB interface board (256ch) dig 8 ArduinoRemoteCh4 Remote Button D
Intan Technologies, RHD2000 USB interface board (256ch) aux 1 AccelerometerX Head mounted accelerometer
Intan Technologies, RHD2000 USB interface board (256ch) aux 2 AccelerometerY Head mounted accelerometer
Intan Technologies, RHD2000 USB interface board (256ch) aux 3 AccelerometerZ Head mounted accelerometer

Equipment

File names

Epoch

Type

Framerate

Notes

OptiTrack, Flex 13 Take 2017-07-16 07.33.52 PM.csv 2 Head position 120
Basler, acA1300-200uc Basler acA1300-200uc (21965891)_20170716_193351214.avi 2 Video

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, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128

Channel tags

Examples and reserved tags: Bad, Good, Theta, Gamma, Delta, Ripple, RippleNoise.

Tag

Channels

Spike groups

Theta 20 3
Ripple 20 3
Cortical 6, 12
GammaPhaseCoupling 32 4

Analysis tags

Tag

Value

Description


Spike sorting

Method

Format

Relative path

Channels

Spike sorter

Notes

Sorting completed

Units count

Sorting ID

KiloSort Phy Kilosort_2017-09-02_181246 Peter Petersen Yes 36 23247

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 15195 0.86779404945082 10 CA1 Pyramidal Cell Unknown 0.98716683119447 131.4428316604 0.7 38.352565292702
2 20828 1.1891080737726 10 CA1 Pyramidal Cell Unknown 2.880737468792 86.047694723324 0.72 35.580931073844
3 38782 2.2146844348218 10 CA1 Pyramidal Cell Unknown 2.9910783353102 87.449907723644 0.67 41.789651733876
4 9479 0.54127934843009 11 CA1 Pyramidal Cell Unknown 2.7429053697647 105.69692822572 0.73 31.306694308105
5 42259 2.4128572225155 11 CA1 Pyramidal Cell Unknown 5.7739179819683 64.538898224836 0.7 60.125960247458
6 54083 3.0880724891657 7 CA1 Pyramidal Cell Unknown 13.997004604035 74.198148429653 0.61 0
7 73501 4.1962478609846 5 CA1 Pyramidal Cell Unknown 6.0271288826002 90.323301231833 0.7 47.61240010306
8 6368 0.42819957812121 4 CA1 Pyramidal Cell Unknown 0.1570351758794 121.78258899533 0.69 35.583242048835
9 88827 5.0714263560047 5 CA1 Narrow Interneuron Unknown 2.1952784626296 71.351706404834 0.39 96.484803610784
10 50689 2.8949487883936 5 CA1 Pyramidal Cell Unknown 4.261279567559 139.32922388322 0.72 53.5125361329
11 226053 12.906928117535 4 CA1 Narrow Interneuron Unknown 1.9818361180785 123.84968236113 0.35 0
12 4350 0.27756461577437 4 CA1 Pyramidal Cell Unknown 1.1494252873563 137.89047586753 0.69 26.817860171155
13 37239 2.1270819966719 3 CA1 Pyramidal Cell Unknown 2.6853567496442 158.6295245394 0.72 0
14 3432 2.4622144778211 2 CA1 Pyramidal Cell Unknown 6.7016317016317 113.04926540518 0.73 0
15 4717 0.26959889596937 8 CA1 Pyramidal Cell Unknown 1.059995760017 152.30382711561 0.72 37.860819851818
16 4989 0.28491791147473 8 CA1 Pyramidal Cell Unknown 0 217.74535940279 0.73 65.339541877448
17 7987 0.45602451853193 10 CA1 Pyramidal Cell Unknown 1.2520345561537 93.887074747415 0.68 33.415209164114
18 19483 1.1417239863423 9 CA1 Pyramidal Cell Unknown 8.6742288148642 66.518249957802 0.7 0
19 21015 1.2000234454259 10 CA1 Pyramidal Cell Unknown 2.0461575065429 85.910478060675 0.71 40.536143004302
20 25638 1.4637337191239 5 CA1 Pyramidal Cell Unknown 3.4324050237928 128.37573415673 0.69 37.925640978134
21 31360 1.7903924424338 8 CA1 Pyramidal Cell Unknown 8.0357142857143 88.345229978215 0.64 125.31664530185
22 31660 1.8077760235168 11 CA1 Wide Interneuron Unknown 0.63171193935565 80.954179060128 0.67 59.380498599032
23 40460 2.3102730708795 4 CA1 Pyramidal Cell Unknown 4.6465645081562 81.443177298318 0.66 55.955432225097
24 3021 0.1727666149156 10 CA1 Pyramidal Cell Unknown 1.3240648791791 173.50297761579 0.67 37.249351465245
25 14590 0.83308096328461 3 CA1 Pyramidal Cell Unknown 2.6045236463331 92.199497112675 0.69 105.68196296138
26 6080 0.34725852389026 4 CA1 Pyramidal Cell Unknown 2.1381578947368 112.04996463924 0.72 39.356416666402
27 115566 6.5978015303873 10 CA1 Narrow Interneuron Unknown 0.80473495664815 82.039400969973 0.27 147.46100543517
28 5808 0.33172779763713 8 CA1 Pyramidal Cell Unknown 0.68870523415978 151.60632888118 0.64 37.937062382036
29 22537 1.2871908970582 4 CA1 Pyramidal Cell Unknown 1.5086302524737 104.10404521577 0.7 54.623696287531
30 18426 1.0520413769255 10 CA1 Pyramidal Cell Unknown 1.0854227721698 77.016934536063 0.74 44.456491003924
31 20361 1.1632039729897 8 CA1 Pyramidal Cell Unknown 5.2060311379598 116.36652194668 0.66 46.999249906257
32 511 0.58937890766289 2 CA1 Pyramidal Cell Unknown 0 320.12239579894 0.75 47.884317917873
33 25591 1.4615789482897 11 CA1 Pyramidal Cell Unknown 5.9786643741941 94.782362689584 0.66 41.647611415172
34 1876 0.10855210423032 11 CA1 Pyramidal Cell Unknown 0.53304904051173 285.53831542455 0.75 53.542841443644
35 6979 0.39901183538341 10 CA1 Pyramidal Cell Unknown 0.2865740077375 186.41030630839 0.75 44.345572961366
36 4617 0.91421049325339 3 CA1 Pyramidal Cell Unknown 2.3824994585229 156.59534735966 0.71 42.34477723204