Details for Peter_MS12_170717_111614_concat

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  • Date & time: 2017-07-17, 11:16:14

  • 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 15:27:59 by Peter Petersen ADMIN
    Updated: 2022-04-12 15:42:22 by Peter Petersen

  • Notes:

Epochs

Epochs Behavioral paradigm Maze type Built maze Manipulation Duration Notes
Peter_MS12_170717_111614 Homecage_Sleep Homecage 14607.144
Peter_MS12_170717_153613 ThetaMaze_AlternativeRunning Theta maze Theta_Maze_Peter Thermal perturbation 16869.168
Peter_MS12_170717_161833 Homecage_Sleep Homecage 25683.516

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit

Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 513670000 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 2017-07-17 03.36.32 PM.csv 2 Head position 120
Basler, acA1300-200uc Basler acA1300-200uc (21965891)_20170717_153617453.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 68 10
Ripple 68 10
Cortical 6, 12
RippleNoise 30 6
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_2017-09-03_223245 Peter Petersen Yes 42 23274

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 38247 1.584113225142 11 CA1 Pyramidal Cell Unknown 6.876356315528 71.377203831938 0.78 35.000609963599
2 66673 2.7610609634231 11 CA1 Pyramidal Cell Unknown 8.5041921017503 79.897472995475 0.7 47.392447764987
3 31976 1.3245577927605 10 CA1 Pyramidal Cell Unknown 3.0335251438579 121.36991904787 0.73 0
4 50575 2.0947474765143 4 CA1 Pyramidal Cell Unknown 12.436974789916 147.74687500125 0.73 39.919672228484
5 41255 1.7083461723281 3 CA1 Pyramidal Cell Unknown 2.7148224457641 121.61476144121 0.73 65.917016914296
6 14555 0.60288286990504 5 CA1 Pyramidal Cell Unknown 2.6794915836482 91.393098036863 0.74 47.225675831528
7 13335 0.55234981415945 5 CA1 Pyramidal Cell Unknown 0.29996250468691 107.23213417843 0.71 59.000243211093
8 4543 0.18875862999169 8 CA1 Pyramidal Cell Unknown 0 210.58508890735 0.75 47.233223152342
9 65630 2.7177886676685 8 CA1 Pyramidal Cell Unknown 7.7555995733658 98.76754646142 0.7 63.83082939916
10 6083 0.25925448642648 4 CA1 Pyramidal Cell Unknown 0.16439256945586 208.83840957978 0.72 33.898066090241
11 4240 0.17570764518779 4 CA1 Wide Interneuron Unknown 0 231.78055615763 0.68 92.661865261792
12 7319 0.34663007287446 10 CA1 Pyramidal Cell Unknown 0.13663068725236 237.33897584355 0.73 44.344546287584
13 12894 0.53429117339918 4 CA1 Pyramidal Cell Unknown 0.46533271288972 105.35553807962 0.74 59.934157602701
14 3494 0.14474284150592 4 CA1 Pyramidal Cell Unknown 0 92.788855705465 0.71 39.430123886472
15 3232 0.13408148172715 4 CA1 Pyramidal Cell Unknown 0 146.00582943065 0.71 39.946782231446
16 40640 1.683481414213 8 CA1 Pyramidal Cell Unknown 2.1407480314961 130.78777835904 0.67 51.814709794563
17 32016 1.3259152401104 3 CA1 Pyramidal Cell Unknown 6.3405797101449 89.303432447204 0.69 56.39360420193
18 31190 1.2917932548471 3 CA1 Pyramidal Cell Unknown 2.4046168643796 95.471540592325 0.74 55.732511933438
19 17195 3.9445982494931 2 CA1 Narrow Interneuron Unknown 1.3375981389939 135.59401440618 0.34 0
20 34913 1.445903988985 7 CA1 Pyramidal Cell Unknown 8.0485778936213 81.875455032011 0.7 0
21 40830 1.6912304251417 8 CA1 Pyramidal Cell Unknown 8.2537349987754 72.76570141397 0.72 46.811576569444
22 45032 1.8660935493018 4 CA1 Pyramidal Cell Unknown 1.6432758926985 110.86951116514 0.7 46.311279584389
23 68047 2.8182498857482 11 CA1 Pyramidal Cell Unknown 10.419269034638 72.144496783231 0.67 49.768769107306
24 168499 6.9794943764969 4 CA1 Narrow Interneuron Unknown 0.39169371925056 161.26400228079 0.31 0
25 50357 2.0853287305283 9 CA1 Pyramidal Cell Unknown 9.6312329964057 60.142132876438 0.73 0
26 14564 0.60317290317381 5 CA1 Pyramidal Cell Unknown 0.20598736610821 175.40616843931 0.73 49.961774737553
27 37497 1.5530414248732 8 CA1 Pyramidal Cell Unknown 1.2801024081927 140.60489904368 0.74 46.767623811667
28 4124 0.34086544016052 10 CA1 Pyramidal Cell Unknown 2.4248302618817 90.80346838475 0.7 53.436289479847
29 2201 0.091228384414055 10 CA1 Pyramidal Cell Unknown 1.8173557473876 148.44926316596 0.68 32.225019870503
30 4237 0.17781764422035 10 CA1 Pyramidal Cell Unknown 0 174.83479420405 0.66 45.253019300387
31 18909 0.78314101859295 11 CA1 Pyramidal Cell Unknown 4.3365593103813 119.57176540354 0.77 34.917433858336
32 21150 0.8762928260877 5 CA1 Pyramidal Cell Unknown 1.1347517730496 132.02852193287 0.7 60.965829084508
33 5200 0.21766756926431 11 CA1 Pyramidal Cell Unknown 1.5384615384615 192.93835422276 0.74 39.836706924862
34 168499 6.9794943764969 4 CA1 Narrow Interneuron Unknown 0.39169371925056 161.34075749504 0.3 0
35 37497 1.5530414248732 8 CA1 Pyramidal Cell Unknown 1.2801024081927 143.4066898618 0.72 46.767623811667
36 4124 0.34086544016052 10 CA1 Pyramidal Cell Unknown 2.4248302618817 89.60244481311 0.76 53.436289479847
37 14564 0.60317290317381 5 CA1 Pyramidal Cell Unknown 0.20598736610821 176.4618460574 0.8 49.961774737553
38 18909 0.78314101859295 11 CA1 Pyramidal Cell Unknown 4.3365593103813 120.61745491514 0.75 34.917433858336
39 4237 0.17781764422035 10 CA1 Pyramidal Cell Unknown 0 174.33915155014 0.73 45.253019300387
40 2201 0.091228384414055 10 CA1 Pyramidal Cell Unknown 1.8173557473876 152.0096906068 0.7 32.225019870503
41 5200 0.21766756926431 11 CA1 Pyramidal Cell Unknown 1.5384615384615 194.95676856037 0.81 39.836706924862
42 21150 0.8762928260877 5 CA1 Pyramidal Cell Unknown 1.1347517730496 132.94220559634 0.71 60.965829084508