Details for 20160307

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  • Date & time: 2016-03-07,

  • Animal subject: PV5

  • 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 15:45:01 by Peter Petersen ADMIN
    Updated: 2020-06-27 18:43:50 by Peter Petersen ADMIN

  • Notes:
    Optotagging in homecage

Epochs

Epochs Behavioral paradigm Maze type Built maze Manipulation Duration Notes
20160307 Homecage_Sleep Homecage Homecage_Mouse Light stimulation 11404.368

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 228087360 64 6 0.195

Implanted probes

PV5 : Silicon probe NeuroNexus Buzsaki64sp (64 ch, 6 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 50, 57, 49, 58, 52, 55, 51, 56, 54, 53
2 60, 37, 59, 35, 62, 34, 61, 33, 64, 63
3 38, 44, 39, 48, 41, 47, 42, 46, 43, 45
4 40, 28, 36, 25, 30, 23, 26, 24, 22, 21
5 27, 6, 29, 5, 32, 4, 31, 3, 1, 2
6 7, 16, 8, 15, 9, 14, 10, 13, 11, 12
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
Theta 34 2
Ripple 34 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 63 28161

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 5511 0.48532996607745 6 HIP Pyramidal Cell Superficial 7.0767555797496 75.536825407838 0.75 40.715847910169
2 8401 0.73739535712763 6 HIP Pyramidal Cell Superficial 5.713605523152 109.26081793246 0.73 53.028150344387
3 2814 0.24906781017174 6 HIP Pyramidal Cell Superficial 1.4214641080313 121.65016479572 0.73 32.009004426935
4 2997 0.27542232238372 6 HIP Pyramidal Cell Superficial 5.005005005005 252.58099488915 0.79 37.826947712461
5 12199 1.0698481812289 6 HIP Narrow Interneuron Deep 0.081973932289532 89.110264135276 0.29 161.08688710437
6 20159 1.7677988067994 5 HIP Pyramidal Cell Superficial 16.121831440052 128.3261170597 0.7 27.218647074174
7 13956 1.2245400457455 5 HIP Pyramidal Cell Superficial 4.5858412152479 216.58096980537 0.69 28.567428966227
8 18619 1.6329082823991 5 HIP Pyramidal Cell Superficial 5.1560234169397 236.95833943049 0.77 39.659136645413
9 9814 0.86117689765121 5 HIP Pyramidal Cell Superficial 0 140.3893866089 0.78 43.565349407071
10 19322 1.6943975331354 5 HIP Pyramidal Cell Deep 0.72456267467136 108.79186743607 0.62 134.31418091314
11 4569 0.40086465866403 5 HIP Pyramidal Cell Deep 0.65659881812213 140.51261944545 0.8 31.499907899247
12 3004 0.26401587695159 5 HIP Pyramidal Cell Superficial 0.33288948069241 293.89052092553 0.77 28.721220717586
13 6918 0.60849965298016 5 HIP Pyramidal Cell Superficial 2.4573576178086 173.32579516067 0.76 26.449007707408
14 11732 1.0289049679798 5 HIP Pyramidal Cell Superficial 8.1827480395499 137.05279149254 0.61 24.530814657451
15 208891 18.316973520832 5 HIP Narrow Interneuron Superficial 1.613281567899 97.960255093011 0.31 0
16 16077 1.4103916767433 5 HIP Pyramidal Cell Superficial 9.3300988990483 169.99596881316 0.77 30.049836463561
17 8233 0.72222264109907 5 HIP Pyramidal Cell Superficial 6.8018948135552 146.80273005891 0.61 29.118913174575
18 19357 1.7033884882318 5 HIP Pyramidal Cell Superficial 6.1993077439686 168.89393866273 0.8 35.086553049084
19 8226 0.72373230810045 5 HIP Pyramidal Cell Deep 6.1998541210795 218.3557648811 0.77 28.568551189092
20 13579 1.1908994392332 4 HIP Pyramidal Cell Deep 18.263495102732 169.44784358043 0.79 36.935690362171
21 8179 0.71760207165638 4 HIP Pyramidal Cell Deep 5.6241594326935 169.19999973322 0.77 36.036862873835
22 8361 0.73975621126579 4 HIP Pyramidal Cell Deep 0.95682334648965 545.22631769798 0.65 67.874883869722
23 6281 0.55136790902003 4 HIP Pyramidal Cell Superficial 11.94077376214 187.92608701292 0.76 24.894935971807
24 3359 0.29515053437316 4 HIP Pyramidal Cell Deep 3.274784161953 351.27956814972 0.78 24.104734216589
25 6230 0.54661472463902 4 HIP Pyramidal Cell Deep 4.1733547351525 249.79291262015 0.79 30.49418360628
26 21682 1.9021668612494 4 HIP Pyramidal Cell Superficial 18.079512960059 99.404058059848 0.6 43.492845785492
27 9813 0.86065066356644 4 HIP Pyramidal Cell Superficial 13.145826964231 126.7710462403 0.66 28.369508425802
28 1451 0.1281877000103 4 HIP Pyramidal Cell Deep 1.3783597518952 160.9543483504 0.75 16.972681638904
29 12001 1.0527288928537 4 HIP Pyramidal Cell Superficial 5.9161736521957 147.35396377 0.65 30.684452836484
30 6696 0.5875916362912 4 HIP Pyramidal Cell Deep 13.739545997611 204.6242145807 0.75 21.531545949551
31 11071 0.97125918955093 4 HIP Pyramidal Cell Deep 12.735976876524 126.58076946934 0.67 32.772339402439
32 6715 0.59312217818701 4 HIP Pyramidal Cell Deep 35.294117647059 278.78475282908 0.73 26.099654828057
33 10362 0.90903273775869 3 HIP Pyramidal Cell Superficial 3.570739239529 110.12513643541 0.6 38.595098936475
34 14736 1.2923856798983 3 HIP Pyramidal Cell Deep 5.971769815418 187.88390138564 0.71 26.390025416783
35 142245 12.472932073554 3 HIP Narrow Interneuron Deep 6.4114731625013 91.752021636375 0.18 100.73727838441
36 140859 12.351443701196 3 HIP Narrow Interneuron Deep 5.5445516438424 139.15055430842 0.26 79.804244127939
37 4881 0.42829911509902 3 HIP Pyramidal Cell Deep 4.5072730997746 195.14584560714 0.79 22.44099126871
38 9547 0.83785581962568 3 HIP Pyramidal Cell Deep 1.2569393526762 284.2300372424 0.74 36.725375901929
39 12277 1.0771597792767 3 HIP Pyramidal Cell Superficial 9.8558279710027 125.57074074747 0.57 40.454315379344
40 139373 12.22108540018 3 HIP Narrow Interneuron Deep 0.43767444196509 137.74249649931 0.31 106.9567751684
41 16034 1.4062160969567 3 HIP Pyramidal Cell Deep 7.4840962953723 130.57875004433 0.65 34.59130340973
42 12204 1.0724468470179 2 HIP Pyramidal Cell Superficial 14.011799410029 98.723839948381 0.69 28.938138278823
43 4327 0.38022823210616 2 HIP Pyramidal Cell Superficial 4.1599260457592 179.91684147501 0.67 44.001788708853
44 23806 2.0876220834375 2 HIP Pyramidal Cell Deep 7.6871376963791 167.59812855903 0.78 77.637681003459
45 1242 0.11687175361827 2 HIP Pyramidal Cell Deep 0 325.65925871424 0.12 26.148065082701
46 183239 16.067556147193 2 HIP Narrow Interneuron Deep 4.6332931308291 173.30246603321 0.28 194.81445318894
47 1853 0.16717259909564 2 HIP Pyramidal Cell Deep 1.0793308148948 611.76742109679 0.8 44.601773167384
48 2154 0.18970603697673 2 HIP Pyramidal Cell Deep 6.4995357474466 171.76481623278 0.78 17.5050390987
49 271596 23.815214955582 2 HIP Narrow Interneuron Superficial 6.1414748376265 162.67550491217 0.28 0
50 10285 0.90195437991919 2 HIP Pyramidal Cell Deep 9.8201263976665 161.83155114446 0.72 40.384637296576
51 2486 0.21914629138008 2 HIP Pyramidal Cell Deep 4.02252614642 307.0482167752 0.81 13.855812837535
52 2869 0.252363348897 2 HIP Pyramidal Cell Deep 3.1369815266643 263.79628186414 0.77 22.53110572961
53 4361 0.38406323570793 2 HIP Pyramidal Cell Superficial 4.8154093097913 138.28948221504 0.6 17.461873581374
54 16144 1.416277729817 1 HIP Pyramidal Cell Deep 11.645193260654 195.84189555357 0.78 47.105273038373
55 66411 5.8234128255943 1 HIP Narrow Interneuron Deep 5.2099802743521 122.57535105495 0.31 310.29707991608
56 14330 1.2568295431072 1 HIP Pyramidal Cell Superficial 6.3503140265178 137.04889797593 0.61 53.728926357837
57 4472 0.39325686014586 1 HIP Pyramidal Cell Deep 4.695885509839 243.08200591356 0.8 23.277649300349
58 10476 0.91938526194358 1 HIP Pyramidal Cell Deep 11.645666284842 141.3355761216 0.73 35.907225052226
59 5434 0.47677554714556 1 HIP Pyramidal Cell Deep 3.1284504968715 166.194722025 0.66 19.280776935007
60 20034 1.7570300925783 1 HIP Pyramidal Cell Deep 8.7351502445842 168.40978329355 0.76 27.657710167435
61 12516 1.0975119025477 1 HIP Narrow Interneuron Superficial 1.7577500798977 118.03022574642 0.32 64.190957407647
62 3261 0.2871997868856 1 HIP Pyramidal Cell Deep 2.7598896044158 409.81161291575 0.74 26.23450679373
63 10967 0.96203459043748 1 HIP Pyramidal Cell Deep 6.109236801313 175.86812417085 0.77 34.69119621772