Details for ham25_47-49_amp

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  • Date & time: 2017-08-17, 11:36:00

  • Location: Alexandria

  • Animal subject: ham25

  • Investigator: Viktor Varga

  • Experimenters: Viktor Varga

  • Project: Medial Septal place cell generation, Place field-memory field unity of hippocampal neurons

  • Data repositories: NYUshare_Datasets, download session from Web share

  • Created: 2018-10-03 0:02:29 by Peter Petersen
    Updated: 2023-08-14 10:57:17 by Peter Petersen

  • Notes:
    pure control session
    Buzsaki 5×12
    ‘Control’,’Stim’,’PostStim’

Epochs

Epochs Behavioral paradigm Maze type Built maze Manipulation Duration Notes
ham25_47 Homecage_Sleep Homecage Homecage_Mouse 9880.056
ham25_48 ThetaMaze_AlternativeRunning Theta maze Theta_Maze_Viktor 9880.056
ham25_49 Homecage_Sleep Homecage Homecage_Mouse 9880.056

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 197601120 64 6 0.195

Implanted probes

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, 24, 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 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 ham25_48.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 56 2
Ripple 22 3
Cortical 6
Bad 17, 19, 20, 21, 24
RippleNoise 51

Analysis tags

Tag

Value

Description
prebehaviortime 1
optiTrackExtraPulses 0
useOptitrackTime 0
optiTrack_length_unit 1
opto_pulse_amplitude 0.5
optiTrack_offset -3,32,0
reward_points_linearized 117,195
sessions 1,2,3 Control, Stim, PostStim

Spike sorting

Method

Format

Relative path

Channels

Spike sorter

Notes

Sorting completed

Units count

Sorting ID
KiloSort Phy Viktor Varga Yes 19 14776

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 212723 21.530640122248 5 CA1 Narrow Interneuron Deep 4.9971089162902 297.13533844281 0.3 129.51784430482
2 7631 0.77271173421701 5 CA1 Pyramidal Cell Deep 2.0967107849561 227.63785088832 0.79 33.619144219174
3 23384 2.3683255578257 3 CA1 Pyramidal Cell Deep 4.8751282928498 183.37646274625 0.79 39.467488841978
4 235938 23.88033923527 5 CA1 Narrow Interneuron Deep 1.6911222439794 98.328990641467 0.32 156.71209044131
5 1588 0.16074812338587 5 CA1 Narrow Interneuron Deep 0 114.24408146375 0.33 14.990942844219
6 2177 0.22460095415685 4 CA1 Pyramidal Cell Deep 3.2154340836013 191.99353750327 0.77 38.25317983854
7 6495 0.6578989418402 5 CA1 Pyramidal Cell Deep 2.1555042340262 259.10366760873 0.81 28.461812753417
8 6973 0.70841467559482 4 CA1 Pyramidal Cell Deep 2.8682059371863 181.56613346996 0.81 37.021634106975
9 7587 0.77013457698242 3 CA1 Pyramidal Cell Deep 3.0315012521418 191.55143179619 0.77 28.492819986285
10 9310 0.94425337034049 4 CA1 Pyramidal Cell Deep 3.5445757250269 129.75482116034 0.82 73.92240378544
11 11930 1.2078294766704 3 CA1 Pyramidal Cell Deep 3.6881810561609 197.8424374989 0.78 44.427364279593
12 12506 1.265981600487 3 CA1 Pyramidal Cell Deep 2.2389253158484 327.90791981189 0.79 41.615135966061
13 13576 1.3744835720435 5 CA1 Pyramidal Cell Deep 4.4195639363583 284.87893344186 0.81 60.969329991285
14 16288 1.6492576307947 4 CA1 Pyramidal Cell Deep 2.7627701375246 89.591793830434 0.78 52.976806945054
15 16835 1.7055641672953 3 CA1 Pyramidal Cell Deep 0.77220077220077 118.17678859251 0.75 54.720086741821
16 30658 3.1031745096675 5 CA1 Pyramidal Cell Deep 3.2617913758236 138.73596448051 0.75 69.081560187873
17 110682 11.202655220178 4 CA1 Narrow Interneuron Deep 0.3523608174771 185.70170349676 0.29 115.55733981477
18 150458 15.228492724664 4 CA1 Narrow Interneuron Deep 1.3890919725106 157.32212072926 0.31 0
19 171027 17.310388220276 3 CA1 Narrow Interneuron Deep 1.9236728703655 201.18767030331 0.36 0