Details for 20160225

Back to list of sessions

  • Date & time: 2016-02-25,

  • Animal subject: PV4

  • 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 15:30:44 by Peter Petersen ADMIN
    Updated: 2020-06-27 18:43:47 by Peter Petersen ADMIN

  • Notes:
    Optotagging in homecage

Epochs

Epochs Behavioral paradigm Maze type Built maze Manipulation Duration Notes
20160225 Homecage_Sleep Homecage Homecage_Mouse Light stimulation 14660.82

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 293216000 65 5 0.195

Implanted probes

PV4 : 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
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 33
Bad 26, 30, 36, 40, 65
Ripple 33

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 72 28091

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 7894 0.53863312850502 5 HIP Pyramidal Cell Superficial 2.9136052698252 123.11835670658 0.67 43.585564015273
2 9865 0.67522635800059 5 HIP Pyramidal Cell Deep 1.7232640648758 296.49413209933 0.71 54.53870988087
3 2798 0.19148296762767 5 HIP Pyramidal Cell Deep 0.35739814152966 359.23638106131 0.22 55.803979835188
4 5721 0.39051777783548 5 HIP Pyramidal Cell Deep 4.3698654081454 151.44745104925 0.62 55.71307533781
5 4053 0.27761146452195 5 HIP Pyramidal Cell Deep 1.727115716753 166.14160622203 0.75 30.952673220405
6 7224 0.49512189616306 5 HIP Pyramidal Cell Deep 0.13842746400886 137.48885611382 0.15 233.29953224412
7 10579 0.72454294825409 5 HIP Pyramidal Cell Superficial 2.3631723225258 385.86503276643 0.71 50.699781388989
8 7873 0.53784591590311 5 HIP Pyramidal Cell Deep 1.7782293915915 114.8507282776 0.75 73.305809494933
9 2947 0.20133943054534 5 HIP Pyramidal Cell Superficial 0 455.78468584952 0.74 52.06933892059
10 8169 0.55765669502906 5 HIP Pyramidal Cell Superficial 0.73448402497246 267.97083956047 0.72 54.471426210184
11 8611 0.58942315166524 5 HIP Pyramidal Cell Superficial 0 428.74211617999 0.79 98.830377680286
12 13676 0.93423062509705 5 HIP Pyramidal Cell Superficial 2.7785902310617 185.39277106983 0.78 72.949287594767
13 11652 0.79651820101511 5 HIP Pyramidal Cell Superficial 0.94404394095434 244.11066839827 0.62 69.010525317515
14 4699 0.32093206156133 5 HIP Pyramidal Cell Superficial 1.2768674185997 116.71082787472 0.65 69.057573390516
15 12737 0.86885988767634 5 HIP Pyramidal Cell Deep 2.6693883960116 176.70673178073 0.71 56.978836866487
16 1713 0.11735798845859 5 HIP Pyramidal Cell Superficial 0.58377116170461 170.73211451646 0.64 42.112257940707
17 4553 0.31064359557005 5 HIP Pyramidal Cell Superficial 0.43927081045465 228.52145047541 0.64 42.144422449191
18 30085 2.0530259934655 5 HIP Pyramidal Cell Superficial 0.16619577862722 520.58741878998 0.79 127.91470193234
19 7622 0.5199315915459 5 HIP Pyramidal Cell Superficial 6.6911571765941 115.40269479754 0.61 51.137206708426
20 1747 0.12070268849209 5 HIP Wide Interneuron Superficial 0 271.57275095873 0.73 67.51449266676
21 7911 0.53984565573181 5 HIP Pyramidal Cell Deep 4.1714069017823 141.71971743828 0.76 37.730003401917
22 2648 0.18487404092795 5 HIP Pyramidal Cell Superficial 0 196.73879234682 0.79 31.318312710726
23 656 0.045645001532256 4 HIP Pyramidal Cell Superficial 0 262.50941535767 0.7 40.371043391995
24 5868 0.40044464778619 4 HIP Pyramidal Cell Superficial 1.3633265167007 224.076225584 0.66 44.537845089539
25 22329 1.5233777596016 4 HIP Pyramidal Cell Deep 0.53741770791348 297.59427390234 0.72 64.499204541574
26 15457 1.0546456737661 4 HIP Pyramidal Cell Deep 5.7579090379763 1047.7736346539 0.4 121.87911898974
27 3475 0.23736533845971 4 HIP Pyramidal Cell Deep 0.28776978417266 284.04209102965 0.55 50.188132247581
28 4931 0.33732144743258 4 HIP Pyramidal Cell Deep 0 408.01070035743 0.78 50.371467590843
29 20606 1.406854515267 4 HIP Pyramidal Cell Superficial 7.9103173832864 147.07000153047 0.61 38.571926772125
30 15300 1.0443867651705 4 HIP Pyramidal Cell Superficial 10.196078431373 142.72780752958 0.68 41.486242017843
31 19253 1.318942833306 4 HIP Pyramidal Cell Deep 2.8047577000987 364.79949632475 0.68 42.142323927662
32 40339 2.7519204467068 4 HIP Wide Interneuron Deep 0.02478990555046 339.50325175337 0.52 166.54916077875
33 1231 0.084389642348469 4 HIP Pyramidal Cell Deep 0 203.53656588411 0.81 31.268717032698
34 5849 0.39899777543562 4 HIP Pyramidal Cell Superficial 6.6678064626432 94.922975393541 0.61 30.763793142559
35 5442 0.37147559204332 4 HIP Pyramidal Cell Deep 4.7776552737964 191.19035272363 0.67 26.338462347339
36 4054 0.27667854625885 4 HIP Pyramidal Cell Deep 0.49333991119882 288.68558160686 0.78 41.735791219418
37 5659 0.38631860873255 4 HIP Wide Interneuron Superficial 0 259.05414735006 0.63 81.894193629957
38 15209 1.0374346234232 4 HIP Pyramidal Cell Deep 1.5122624761654 218.4569732978 0.7 72.548090752532
39 538 0.037633393416655 4 HIP Pyramidal Cell Deep 0 255.91478916432 0.8 30.710675215789
40 15781 1.0772998811366 4 HIP Pyramidal Cell Deep 5.2594892592358 223.4089208796 0.8 37.962441170676
41 6961 0.47501989713066 4 HIP Pyramidal Cell Deep 1.7238902456544 166.78616766993 0.74 41.261647680678
42 32565 2.2213670999141 4 HIP Pyramidal Cell Deep 15.906648241978 182.39088664963 0.65 50.697639643306
43 18549 1.2665153241509 4 HIP Pyramidal Cell Superficial 5.4450374683271 138.43907669474 0.64 65.735478244268
44 24004 1.6382448687758 4 HIP Unknown Deep 2.4162639560073 90.01477622742 0.3 136.69407831498
45 2019 0.13790247467323 3 HIP Pyramidal Cell Deep 0.99058940069341 261.76180749068 0.12 35.195687892307
46 1496 0.11025280278599 3 HIP Pyramidal Cell Deep 0.66844919786096 234.94765190248 0.65 41.532001640525
47 1162 0.082151721858025 3 HIP Pyramidal Cell Deep 70.567986230637 412.7298041099 0.78 65.53593306263
48 7702 0.52708842002687 3 HIP Pyramidal Cell Deep 6.6216567125422 296.70125894161 0.72 21.488451171257
49 53120 3.6233369240771 3 HIP Pyramidal Cell Superficial 8.6784638554217 125.0557669531 0.69 55.765351606648
50 19361 1.3207130034332 3 HIP Pyramidal Cell Deep 5.9397758380249 128.78036501864 0.77 28.348119101951
51 85485 5.8309448354967 3 HIP Narrow Interneuron Deep 5.287477335205 64.642141729492 0.22 101.21976297313
52 3444 0.2356312198449 3 HIP Pyramidal Cell Deep 0.29036004645761 348.46519190182 0.78 35.25884069667
53 30204 2.0602100479092 3 HIP Unknown Deep 6.5223149251755 80.08152600411 0.33 24.349896831114
54 39494 2.6964518980008 3 HIP Pyramidal Cell Deep 13.571681774447 199.00499104432 0.72 26.852233383281
55 35329 2.4099377184684 3 HIP Pyramidal Cell Deep 8.2934699538623 130.63660986352 0.66 29.258335760099
56 134254 9.1574170245246 3 HIP Narrow Interneuron Deep 3.5678638997721 101.74768541104 0.22 75.512093506401
57 9344 0.63822360077791 3 HIP Pyramidal Cell Deep 12.414383561644 194.60345522478 0.8 24.174419303645
58 16879 1.1521308911339 3 HIP Pyramidal Cell Deep 0.53320694353931 260.39716566044 0.49 35.960589871185
59 7127 0.48781585280783 2 HIP Pyramidal Cell Deep 0.56124596604462 461.82320498462 0.6 47.052378332713
60 11186 0.77267360831405 2 HIP Pyramidal Cell Deep 0.089397461112104 377.36432280128 0.73 67.775684694433
61 5951 0.40709128250719 2 HIP Pyramidal Cell Deep 1.3443118803562 298.66230610262 0.81 33.954741613714
62 20576 1.4036421430183 2 HIP Pyramidal Cell Deep 13.559486780715 142.22362179444 0.76 48.986803852395
63 89152 6.081039751936 2 HIP Narrow Interneuron Deep 4.610104091888 92.801395042558 0.3 367.14455679847
64 14339 0.97819931815639 2 HIP Pyramidal Cell Deep 3.1382941627729 234.15158772545 0.73 66.4890530367
65 34304 2.340971747718 2 HIP Pyramidal Cell Deep 0.96198694029851 308.34951434212 0.6 63.783219033
66 10306 0.70445135194714 2 HIP Pyramidal Cell Deep 2.0376479720551 431.52313494129 0.75 31.744967378892
67 22978 1.5694446435639 2 HIP Pyramidal Cell Deep 8.3558186091044 377.88926483366 0.51 35.099022869935
68 252543 17.225882595423 2 HIP Narrow Interneuron Deep 3.1915356988711 370.23971452952 0.26 251.77844315878
69 9635 0.65767403397079 2 HIP Pyramidal Cell Deep 14.426569797613 276.50630281065 0.76 31.543211806091
70 120907 8.2471596821821 2 HIP Wide Interneuron Deep 0.016541639441885 353.14235822898 0.77 194.18665220005
71 38154 2.6025059259037 2 HIP Narrow Interneuron Deep 1.9132987366986 191.40063383238 0.2 43.30283084481
72 4129 0.28251055560767 2 HIP Pyramidal Cell Deep 0.9687575684185 505.31759516037 0.71 29.895938298381