Details for 20160308

Back to list of sessions

  • Date & time: 2016-03-08,

  • 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 15:45:47 by Peter Petersen ADMIN
    Updated: 2020-06-27 18:43:53 by Peter Petersen ADMIN

  • Notes:
    Optotagging in homecage

Epochs

Epochs Behavioral paradigm Maze type Built maze Manipulation Duration Notes
20160308 Homecage_Sleep Homecage Homecage_Mouse Light stimulation 21235.284

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 424705680 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
Ripple 34 2
Theta 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 87 28174

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 11206 0.52846684816071 6 HIP Pyramidal Cell Superficial 3.5695163305372 81.783710902988 0.66 98.144889689033
2 11674 0.55094602078045 6 HIP Pyramidal Cell Deep 7.4524584546856 82.767181227724 0.74 42.674290587448
3 3764 0.17967870078131 6 HIP Pyramidal Cell Deep 1.0626992561105 275.85571861831 0.72 38.6517487539
4 15392 0.72543790136094 6 HIP Pyramidal Cell Deep 11.434511434511 110.54555472357 0.8 66.4890035022
5 2049 0.097359333581301 6 HIP Pyramidal Cell Superficial 0.97608589555881 159.03138911595 0.79 30.163063064976
6 9571 0.4511460735308 6 HIP Pyramidal Cell Superficial 3.7613624490649 105.76507587553 0.78 54.295796000308
7 19304 0.90982563493819 5 HIP Pyramidal Cell Deep 9.1690841276419 263.56954067392 0.81 25.28274867698
8 23638 1.1140994660443 5 HIP Pyramidal Cell Superficial 12.141467129199 118.34063300106 0.75 24.255461314248
9 17388 0.81905801601595 5 HIP Pyramidal Cell Deep 13.400046008742 214.01660420208 0.78 21.789376575879
10 2349 0.11092997245142 5 HIP Pyramidal Cell Deep 0.42571306939123 414.69506100147 0.48 27.365950351503
11 7210 0.34068674485805 5 HIP Pyramidal Cell Deep 2.9126213592233 154.303501387 0.68 20.40798420076
12 12534 0.59076334301862 5 HIP Pyramidal Cell Deep 1.7552257858625 236.33246816266 0.7 29.182190715044
13 8610 0.40586303805312 5 HIP Pyramidal Cell Deep 3.0197444831591 272.87880684702 0.82 24.786327358476
14 11220 0.52852474921713 5 HIP Pyramidal Cell Superficial 6.0606060606061 128.19935168477 0.62 28.372595148074
15 17624 0.82999624318853 5 HIP Pyramidal Cell Deep 4.6527462551067 153.01004234895 0.78 27.177243168398
16 3826 0.1808066214844 5 HIP Pyramidal Cell Deep 0.52273915316257 286.18883259022 0.77 32.974396731626
17 19189 0.90446122660176 5 HIP Pyramidal Cell Superficial 7.6606389077075 116.79010148117 0.69 30.448101785237
18 6141 0.28961244005265 5 HIP Pyramidal Cell Superficial 3.5824784237095 220.88325831404 0.8 21.032930566239
19 15074 0.70998459928292 5 HIP Pyramidal Cell Deep 4.1130423245323 105.06964249386 0.51 30.977127765776
20 13813 0.65152175196968 5 HIP Pyramidal Cell Deep 8.6150727575472 132.93465981603 0.7 20.058532704684
21 15836 0.74637723191996 5 HIP Pyramidal Cell Deep 3.9151300833544 112.64591509603 0.78 31.830195709752
22 23321 1.0991461059061 5 HIP Pyramidal Cell Superficial 11.834826979975 142.27602984516 0.69 20.659377145766
23 7329 0.34688464457875 5 HIP Pyramidal Cell Deep 0.54577705007504 247.42313322191 0.78 43.133894623227
24 423560 19.946174525655 5 HIP Narrow Interneuron Superficial 0.99631693266597 114.67991323748 0.23 0
25 19339 0.91162393536122 4 HIP Pyramidal Cell Superficial 8.7388179326749 297.9021925483 0.76 32.358392604798
26 12941 0.61038201173978 4 HIP Pyramidal Cell Deep 6.0273549184762 288.69643771354 0.79 26.866055926136
27 5979 0.28274184427568 4 HIP Pyramidal Cell Deep 6.6900819535039 173.82793118597 0.79 20.712524673085
28 26081 1.228726645269 4 HIP Pyramidal Cell Deep 14.915072274836 137.5753432085 0.77 40.857505659572
29 18118 0.8541097465922 4 HIP Pyramidal Cell Superficial 16.226956617728 257.15185066451 0.77 34.811060757092
30 6481 0.30591525352598 4 HIP Pyramidal Cell Superficial 8.7949390526153 164.31408060772 0.77 21.316378541962
31 9235 0.43536630967006 4 HIP Pyramidal Cell Superficial 5.1976177585273 161.51352863504 0.73 20.538651895537
32 16512 0.77823921186689 4 HIP Pyramidal Cell Deep 12.415213178295 132.75827661199 0.69 32.18808507726
33 14949 0.70552766768942 4 HIP Pyramidal Cell Superficial 10.836845273931 148.20951908445 0.71 32.861111983055
34 17020 0.80230529746844 4 HIP Pyramidal Cell Deep 11.515863689777 155.61266175781 0.81 29.29278947811
35 19904 0.93812937996136 4 HIP Pyramidal Cell Deep 12.158360128617 125.33192248669 0.57 35.56271271385
36 31464 1.4830186237002 4 HIP Pyramidal Cell Superficial 17.512077294686 157.95605212029 0.7 33.978457292226
37 176836 8.3274717763476 3 HIP Narrow Interneuron Deep 4.6483747653193 77.104511414294 0.26 79.431022757966
38 36845 1.7358140280556 4 HIP Pyramidal Cell Superficial 13.190392183471 103.51778100996 0.66 51.980252473343
39 170740 8.0404242997925 3 HIP Narrow Interneuron Deep 4.738198430362 110.36096269664 0.25 68.663936075307
40 18714 0.88219227713022 3 HIP Pyramidal Cell Deep 3.5267714010901 222.3298133602 0.8 36.044680144839
41 30367 1.4309769008157 3 HIP Pyramidal Cell Deep 9.9120756083907 155.68775003586 0.71 32.482903018229
42 25892 1.2199884410195 3 HIP Pyramidal Cell Superficial 5.2912096400433 124.25197204012 0.6 37.463732783318
43 11602 0.54676617462306 3 HIP Pyramidal Cell Deep 5.4300982589209 133.2581516474 0.76 23.656806751739
44 11908 0.56130833752076 3 HIP Pyramidal Cell Superficial 2.6032919046019 128.83352843926 0.62 21.610325800113
45 6111 0.28820143370192 3 HIP Pyramidal Cell Superficial 1.1454753722795 177.03258872761 0.71 20.874514092806
46 3838 0.18098238383823 3 HIP Pyramidal Cell Deep 1.0422094841063 186.59273324055 0.81 22.71350810011
47 3625 0.17349900482885 3 HIP Pyramidal Cell Deep 0.82758620689655 289.9570236622 0.76 25.566678872037
48 12367 0.58345408521947 3 HIP Pyramidal Cell Deep 7.8434543543301 201.22703234589 0.77 26.066034592038
49 20243 0.95392686174469 3 HIP Pyramidal Cell Deep 11.90534999753 169.11128390523 0.79 22.872170697025
50 230413 10.853149301187 3 HIP Narrow Interneuron Deep 0.49476375030923 161.54027359041 0.33 117.41064076244
51 17601 0.82928654870621 3 HIP Pyramidal Cell Superficial 6.7609794898017 128.10404012519 0.63 24.58903642764
52 10538 0.49670527631849 3 HIP Pyramidal Cell Superficial 9.5843613588916 115.91340390185 0.63 30.672992309655
53 6560 0.30935135742609 3 HIP Pyramidal Cell Deep 5.9451219512195 94.350956142232 0.62 25.90226433582
54 10543 0.4974310197866 2 HIP Pyramidal Cell Deep 5.5012804704543 183.19834571995 0.72 28.204182894439
55 53312 2.5106845493602 2 HIP Pyramidal Cell Deep 12.642557022809 169.30481738204 0.73 47.327511605434
56 7129 0.34167789285513 2 HIP Pyramidal Cell Deep 5.8914293729836 321.43492403081 0.78 15.304530828882
57 7214 0.34108253886334 2 HIP Pyramidal Cell Deep 1.9406709176601 290.77234807882 0.79 20.210601958079
58 581396 27.378955452464 2 HIP Narrow Interneuron Superficial 5.1668742131009 170.39431714636 0.31 0
59 194395 9.1566088928663 2 HIP Narrow Interneuron Deep 2.80357005067 160.12246911288 0.27 125.95506969411
60 25314 1.1933122696166 2 HIP Pyramidal Cell Deep 13.78683732322 149.36169210311 0.79 25.078416909914
61 17106 0.80612963709244 2 HIP Pyramidal Cell Deep 11.048754822869 203.35338298236 0.46 14.444172080259
62 3450 0.16476485715939 2 HIP Pyramidal Cell Deep 1.1594202898551 347.55636709215 0.8 23.365947862938
63 17275 0.81427326430507 2 HIP Pyramidal Cell Superficial 10.419681620839 101.43755234047 0.61 34.968021812529
64 10985 0.51783929745296 2 HIP Pyramidal Cell Deep 8.375056895767 244.68321327605 0.8 18.192864580362
65 5409 0.25501020383799 2 HIP Pyramidal Cell Superficial 2.9580329081161 178.62856004968 0.69 21.490870900888
66 32845 1.547673057537 2 HIP Pyramidal Cell Deep 14.553204445121 179.55265325737 0.75 36.438167334389
67 22489 1.0600252607852 2 HIP Pyramidal Cell Superficial 10.449553114856 115.96091640551 0.66 28.419586497759
68 29691 1.399227565685 2 HIP Pyramidal Cell Deep 1.7850527095753 170.69783675821 0.79 32.501622247505
69 3984 0.18828595874217 2 HIP Pyramidal Cell Deep 8.2831325301205 242.97537375786 0.76 16.44687133443
70 9127 0.43054284022493 2 HIP Pyramidal Cell Deep 5.587816369015 380.90182558881 0.75 28.539574999511
71 25563 1.204741268381 1 HIP Pyramidal Cell Deep 7.6673316903337 157.34588644415 0.81 33.007822333256
72 121673 5.7297733938032 1 HIP Narrow Interneuron Deep 10.544656579521 133.19443724114 0.32 110.35583971187
73 2887 0.13616246422272 1 HIP Pyramidal Cell Deep 0.69276065119501 182.77363452053 0.13 16.893540679299
74 26472 1.2477213425352 1 HIP Pyramidal Cell Deep 10.577213659716 184.03412375209 0.79 30.374554575908
75 40795 1.9211903828417 1 HIP Pyramidal Cell Deep 9.0207133227111 175.82227923962 0.76 31.83676656068
76 7677 0.36164942323913 1 HIP Pyramidal Cell Deep 4.4288133385437 176.91173011819 0.76 16.54255464136
77 6629 0.31258792198418 1 HIP Pyramidal Cell Superficial 2.8661939960778 144.66927958785 0.68 34.340272539017
78 13336 0.6285434173447 1 HIP Pyramidal Cell Deep 8.623275344931 144.60138887264 0.71 21.655765030363
79 27497 1.295510898082 1 HIP Pyramidal Cell Superficial 8.8009601047387 142.61285960148 0.67 51.678191333714
80 11791 0.55580329547704 1 HIP Pyramidal Cell Superficial 2.5443134594182 111.67482602893 0.67 38.753995964382
81 8901 0.41954748417192 1 HIP Pyramidal Cell Deep 8.0889787664307 156.550098638 0.79 19.811984930363
82 20623 0.97435068707752 1 HIP Pyramidal Cell Deep 10.716190660913 312.64165968519 0.81 21.546995130418
83 877 0.041991091338601 1 HIP Pyramidal Cell Deep 0 413.82185256991 0.82 23.198766336333
84 10823 0.51082467721378 1 HIP Pyramidal Cell Deep 4.3426037143121 213.4981953723 0.8 23.369070861403
85 11913 0.56146995369518 1 HIP Pyramidal Cell Deep 5.5401662049861 197.32091270999 0.77 21.065648859914
86 20039 0.94475909554161 1 HIP Pyramidal Cell Deep 4.7906582164779 250.85540951171 0.81 23.122566288165
87 15963 0.75208155460624 1 HIP Pyramidal Cell Superficial 5.4501033640293 142.16633524487 0.52 37.285863676164