Details for ham31_28-30_amp

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  • Date & time: 2017-08-17, 11:36:00

  • Location: Alexandria

  • Animal subject: ham31

  • Investigator: Viktor Varga

  • Experimenters: Viktor Varga

  • Project: Medial Septal place cell generation

  • Data repositories: NYUshare_Datasets, download session from Web share

  • Created: 2019-01-30 15:56:01 by Viktor Varga
    Updated: 2023-08-14 10:58:14 by Peter Petersen

  • Notes:
    control session
    4×16 poly 2
    ‘Control’,’Stim’,’PostStim’

Epochs

Epochs Behavioral paradigm Maze type Built maze Manipulation Duration Notes
ham31_28 Homecage_Sleep Homecage Homecage_Mouse 5986.908
ham31_29 ThetaMaze_AlternativeRunning Theta maze Theta_Maze_Viktor 5986.908
ham31_30 Homecage_Sleep Homecage Homecage_Mouse 5986.908

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit

Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 119738160 64 4 0.195

Implanted probes

HAM31 : Silicon probe NeuroNexus A4x16-Poly2-5mm-23s-200-177 (64 ch, 4 shanks, poly 2 ) | Region: CA1 | 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 58, 55, 53, 60, 54, 59, 51, 62, 52, 61, 49, 64, 50, 63, 56, 57
2 43, 42, 39, 46, 38, 47, 37, 48, 35, 44, 34, 40, 33, 36, 41, 45
3 24, 21, 20, 25, 17, 28, 18, 27, 22, 29, 26, 32, 30, 31, 19, 23
4 9, 8, 6, 11, 5, 12, 4, 13, 3, 14, 2, 15, 1, 16, 7, 10
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 3 opto Analog reading of the opto stimulation
Intan Technologies, RHD2000 USB interface board (256ch) dig 1 optiTrack_sync optiTrack TTL sync

Equipment

File names

Epoch

Type

Framerate

Notes

OptiTrack, Flex 13 ham31_29.csv 2 Head position 120

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

Channel tags

Examples and reserved tags: Bad, Good, Theta, Gamma, Delta, Ripple, RippleNoise.

Tag

Channels

Spike groups

Theta 23 3
Ripple 23 3

Analysis tags

Tag

Value

Description

prebehaviortime 1
optiTrackExtraPulses 0
useOptitrackTime 0
optiTrack_length_unit 1
opto_pulse_amplitude 0.5
optiTrack_offset -8,15,0
reward_points_linearized 118,192
sessions 1,2,3 Control, Stim, PostStim
timefile 1 ham31_24_time
optiTrack_scaling 0.5
optiTrack_rotation_angle -62

Spike sorting

Method

Format

Relative path

Channels

Spike sorter

Notes

Sorting completed

Units count

Sorting ID

KiloSort Phy Viktor Varga Yes 57 25054

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 3785 0.63484652622967 1 CA1 Wide Interneuron Deep 0.52840158520476 163.11936107204 0.65 83.380612407241
2 2547 0.4324465256398 1 CA1 Wide Interneuron Deep 0 482.37326665719 0.58 98.806648532712
3 5113 0.85409656903912 1 CA1 Pyramidal Cell Deep 4.3027576765109 309.70212567125 0.59 50.484059329255
4 3081 0.51537154600072 1 CA1 Wide Interneuron Deep 0.32456994482311 307.43714652509 0.54 53.865223290736
5 4940 0.82559342284816 1 CA1 Pyramidal Cell Deep 1.0121457489879 239.58475514533 0.73 42.873791182697
6 6252 1.0485889660566 3 CA1 Wide Interneuron Deep 1.1196417146513 173.24055540129 0.69 62.096424108047
7 5094 0.85406436682759 1 CA1 Wide Interneuron Deep 0.39261876717707 333.21848443632 0.58 56.289005425534
8 9878 1.6514604850797 1 CA1 Wide Interneuron Deep 0 223.6474795642 0.62 109.58224770593
9 8738 1.4622892985752 4 CA1 Pyramidal Cell Deep 0.57221332112612 74.396086605006 0.56 50.530450285815
10 6912 1.1546524194274 1 CA1 Pyramidal Cell Deep 0.28935185185185 333.99736340193 0.61 64.378989767348
11 9235 1.5434889631221 3 CA1 Pyramidal Cell Deep 0.10828370330265 332.89895081443 0.7 64.517277650932
12 13146 2.1984623139142 3 CA1 Pyramidal Cell Deep 1.5213753232923 155.76478292793 0.7 61.914372866812
13 15472 2.5864839912196 2 CA1 Pyramidal Cell Deep 2.3267838676319 143.73772824276 0.7 62.417544818687
14 24686 4.1259673578754 1 CA1 Pyramidal Cell Deep 3.3217208134165 221.41631175777 0.65 82.51594659474
15 14577 2.4349185459863 4 CA1 Wide Interneuron Deep 1.2348219798312 104.2993016951 0.63 97.408411002167
16 14627 2.4532638724382 1 CA1 Pyramidal Cell Deep 0.27346687632461 277.50873626191 0.59 86.714515510881
17 11935 2.0023366522154 3 CA1 Pyramidal Cell Deep 0 194.82156301479 0.65 54.957682999322
18 15697 2.621911033399 1 CA1 Pyramidal Cell Deep 2.038606103077 183.5958739891 0.6 97.705775896738
19 13088 2.1862203008829 1 CA1 Pyramidal Cell Deep 2.3685819070905 154.21803007102 0.54 87.534015573101
20 15225 2.5455623900539 2 CA1 Pyramidal Cell Deep 2.6929392446634 177.48448272318 0.7 57.600002336526
21 27240 4.5525207979506 2 CA1 Pyramidal Cell Deep 7.0117474302496 129.42739798998 0.73 64.373307744728
22 133884 22.362985374029 4 CA1 Narrow Interneuron Deep 2.4648202921932 192.40454445883 0.24 0
23 30901 5.1616684555 3 CA1 Pyramidal Cell Deep 6.5046438626582 118.6496936631 0.72 66.032221795338
24 771 0.13158731922872 4 CA1 Wide Interneuron Deep 0 531.44375403984 0.71 100.32977567868
25 919 0.15553026529266 2 CA1 Pyramidal Cell Deep 0 288.44754872837 0.67 44.336617181166
26 1145 0.19536263532286 3 CA1 Wide Interneuron Deep 0.87336244541485 285.87886284154 0.69 49.110116619615
27 1150 0.195449228154 3 CA1 Pyramidal Cell Deep 0 272.10822463026 0.72 45.404140553547
28 1370 0.22914126251082 2 CA1 Pyramidal Cell Deep 0 259.82534451623 0.6 145.51173742955
29 1368 0.23410370393644 1 CA1 Wide Interneuron Deep 0.73099415204678 232.17757292758 0.61 48.530396367775
30 1451 0.24856300902259 2 CA1 Pyramidal Cell Deep 0 205.98945724569 0.76 40.962298189855
31 1443 0.24115492653987 1 CA1 Pyramidal Cell Deep 0 314.16655917628 0.6 68.867757936026
32 1495 0.24986454667435 4 CA1 Wide Interneuron Deep 0 177.85252740968 0.54 51.645106451443
33 1829 0.30724776564814 1 CA1 Pyramidal Cell Deep 0 205.09728439761 0.69 73.327478827217
34 2324 0.38880313554672 4 CA1 Wide Interneuron Deep 0.4302925989673 190.71523414508 0.62 46.84191672832
35 3178 0.53260811481757 3 CA1 Pyramidal Cell Deep 2.2026431718062 128.56832368687 0.62 54.412008491957
36 3546 0.5950642741156 2 CA1 Pyramidal Cell Deep 0 330.81843735063 0.58 172.3821009687
37 3657 0.61208284167184 4 CA1 Pyramidal Cell Deep 0 134.75195482734 0.55 44.973238170793
38 3700 0.62791818612968 4 CA1 Wide Interneuron Deep 0 244.56640851799 0.71 70.803344727787
39 3584 0.60048239813771 3 CA1 Wide Interneuron Deep 0.27901785714286 146.15114388344 0.73 38.16055768808
40 3924 0.65790117303326 1 CA1 Wide Interneuron Deep 0 411.96922756574 0.58 103.1888347057
41 3619 0.60464116981676 2 CA1 Pyramidal Cell Deep 0.82895827576679 76.212507076288 0.52 48.048862023178
42 4019 0.67313450273328 1 CA1 Pyramidal Cell Deep 0 284.74877142476 0.74 56.267608223243
43 5097 0.85192441359558 1 CA1 Wide Interneuron Deep 1.765744555621 184.21491588553 0.76 46.565571352629
44 4124 0.69158879445039 4 CA1 Wide Interneuron Deep 0.7274490785645 208.65084279766 0.67 57.202816770458
45 5486 0.91728676740268 4 CA1 Pyramidal Cell Deep 0.729128691214 107.8570989111 0.69 52.756505434841
46 5965 0.99767234595343 3 CA1 Pyramidal Cell Deep 0.16764459346186 196.87394768262 0.71 47.051259738992
47 7689 1.286309339111 3 CA1 Wide Interneuron Deep 0 400.11353683267 0.68 244.47488333987
48 8427 1.4096913410801 1 CA1 Pyramidal Cell Deep 0.83066334401329 513.41828924166 0.58 107.14104894328
49 9018 1.5065270308671 1 CA1 Pyramidal Cell Deep 1.3306719893546 195.02978742256 0.74 82.633631528558
50 12170 2.0333253843733 2 CA1 Pyramidal Cell Deep 0.65735414954807 211.36462556579 0.68 56.096171601604
51 12155 2.0318565689463 3 CA1 Pyramidal Cell Deep 0.16454134101193 158.1407110128 0.69 51.217732899605
52 12658 2.1157460867347 2 CA1 Pyramidal Cell Deep 2.2910412387423 95.723489671369 0.58 60.4998987663
53 18068 3.0186539464853 2 CA1 Pyramidal Cell Deep 0.055346468895284 240.4217502569 0.7 68.304394486658
54 19406 3.2441114366488 3 CA1 Pyramidal Cell Deep 3.9163145418943 96.060812642837 0.68 63.198550922005
55 218933 36.569007224773 3 CA1 Narrow Interneuron Deep 0.14159583068793 178.15726783588 0.28 0
56 70380 11.756018616335 3 CA1 Narrow Interneuron Deep 1.1935208866155 111.15128598422 0.3 99.497618376451
57 126521 21.133321709987 2 CA1 Narrow Interneuron Deep 0.92474767034722 80.704952152304 0.37 659.33996490999