Details for 20170301

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  • Date & time: 2017-03-01,

  • Animal subject: PV8

  • Investigator: Sam McKenzie

  • Experimenters: Dan English, Sam McKenzie

  • Project: Ground truth cell-types using various opto-tag approaches

  • Data repositories: NYUshare_Datasets, download session from Web share

  • Created: 2019-04-02 15:44:32 by Peter Petersen ADMIN
    Updated: 2020-06-27 18:44:12 by Peter Petersen ADMIN

  • Notes:
    Optotagging in homecage

Epochs

Epochs Behavioral paradigm Maze type Built maze Manipulation Duration Notes
20170301 Homecage_Sleep Homecage Homecage_Mouse Light stimulation 34215.48

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 684309600 64 6 0.195

Implanted probes

PV8 : Silicon probe NeuroNexus Buzsaki 5×12 (64 ch, 5 shanks, staggered Non-uniform) | Region: HIP | Coordinates: , ,

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
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) adc 0 StimShank1
Intan Technologies, RHD2000 USB interface board (256ch) adc 1 StimShank1
Intan Technologies, RHD2000 USB interface board (256ch) adc 2 StimShank3
Intan Technologies, RHD2000 USB interface board (256ch) adc 3 StimShank4

Equipment

File names

Epoch

Type

Framerate

Notes
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
HIP – Hippocampal region (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
Ripple 62 6
Theta 62 2

Analysis tags

Tag

Value

Description

Spike sorting

Method

Format

Relative path

Channels

Spike sorter

Notes

Sorting completed

Units count

Sorting ID
Klustakwik Neurosuite Sam McKenzie Yes 27 28148

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 107638 3.146749617666 5 HIP Wide Interneuron Deep 3.2888013526821 171.46388039224 0.69 64.815026456476
2 27190 0.79477960925127 5 HIP Pyramidal Cell Deep 2.3905847738139 111.53056838741 0.72 46.248926257927
3 91945 2.6926139159377 5 HIP Wide Interneuron Deep 0.44591875577791 197.60527407247 0.71 52.966513833431
4 701379 20.499120599683 5 HIP Narrow Interneuron Deep 1.97753283175 215.58586095046 0.28 0
5 86916 2.5403874058058 5 HIP Pyramidal Cell Superficial 10.423857517603 97.773513067208 0.74 67.018213787916
6 70118 2.0493384890377 5 HIP Pyramidal Cell Deep 9.4554893180068 103.0109004251 0.79 32.332415859563
7 70679 2.0657232024405 5 HIP Pyramidal Cell Superficial 10.86602809887 97.957100964154 0.69 62.257907258216
8 35318 1.0349631158932 5 HIP Pyramidal Cell Deep 6.3423749929215 164.83894980878 0.79 35.180043131927
9 51550 1.5067179225311 5 HIP Pyramidal Cell Deep 3.5499515033948 128.04142382826 0.8 52.209300893498
10 616619 18.021811369376 3 HIP Narrow Interneuron Deep 1.5844467977795 290.81257937452 0.33 0
11 20245 0.59532123587553 3 HIP Wide Interneuron Deep 0.098789824648061 250.62917527574 0.78 68.464224007374
12 370652 10.833210423408 3 HIP Narrow Interneuron Deep 2.1286813507009 72.617236368047 0.34 421.24892081992
13 113206 3.3087642598044 3 HIP Pyramidal Cell Deep 11.660159355511 102.67651418532 0.78 52.008852820529
14 102564 2.9976563865023 2 HIP Pyramidal Cell Deep 6.1425061425061 75.594904499215 0.73 51.095588086518
15 8970 0.36515654582718 2 HIP Pyramidal Cell Deep 1.1148272017837 135.65163520135 0.76 32.483321260994
16 18788 0.77469064549727 2 HIP Wide Interneuron Deep 2.9274004683841 240.49690977524 0.78 34.606679353862
17 85415 2.4992306742409 2 HIP Pyramidal Cell Deep 13.545630158637 88.492281966203 0.76 48.149050725487
18 60375 1.7947825372882 2 HIP Pyramidal Cell Deep 20.091097308489 99.947580391766 0.78 41.58928380089
19 44240 1.293361986973 2 HIP Wide Interneuron Deep 4.6790235081374 79.798383129633 0.55 53.988229286765
20 18059 0.53247578323195 2 HIP Pyramidal Cell Deep 10.299573619802 171.01753086104 0.71 31.765421846172
21 56443 1.6496991047681 2 HIP Pyramidal Cell Deep 10.807363180554 115.69508799603 0.74 35.376798884512
22 11664 0.34238393544907 2 HIP Pyramidal Cell Deep 4.0294924554184 173.54668158638 0.73 24.633930325414
23 39615 1.1683025598512 2 HIP Pyramidal Cell Deep 15.044806260255 160.98947678973 0.73 34.284164993766
24 16039 0.47537248504756 2 HIP Pyramidal Cell Deep 2.1821809339734 203.88429762837 0.77 33.889507148915
25 227543 6.6503256032944 1 HIP Narrow Interneuron Deep 10.797959067077 102.23333973154 0.32 235.56374509215
26 418925 12.243774450961 1 HIP Narrow Interneuron Deep 0.32941457301426 131.76658000819 0.31 0
27 3012 0.090206677469336 1 HIP Pyramidal Cell Deep 0 168.6043314902 0.79 52.089538947341