Details for ham25_35-37_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 0:13:50 by Peter Petersen
    Updated: 2023-08-14 10:56:41 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_35 Homecage_Sleep Homecage Homecage_Mouse 6564.42
ham25_36 ThetaMaze_AlternativeRunning Theta maze Theta_Maze_Viktor 6564.42
ham25_37 Homecage_Sleep Homecage Homecage_Mouse 6564.42

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 131288400 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_36.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 32 4
Cortical 6
Bad 17, 19, 20, 21, 24

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 118,192
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 18 14869

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 5563 0.8485428758587 4 CA1 Pyramidal Cell Deep 1.6178321049793 274.21631529878 0.79 37.149311306964
2 13408 2.0427473837088 2 CA1 Narrow Interneuron Deep 0.074582338902148 79.560626266161 0.43 0
3 44339 6.7546993654911 3 CA1 Wide Interneuron Deep 5.8639121315321 163.92316818383 0.74 50.19575803082
4 49983 7.6150075355179 3 CA1 Pyramidal Cell Deep 8.6029249944981 382.03435576732 0.76 42.210029956408
5 106868 16.280299631672 4 CA1 Narrow Interneuron Deep 1.2351686192312 163.80978048141 0.28 66.417686850358
6 263419 40.129137034272 5 CA1 Narrow Interneuron Deep 5.4931496968708 202.77248917002 0.26 0
7 282665 43.060218832104 4 CA1 Narrow Interneuron Deep 5.699326057347 196.70105358982 0.29 0
8 4653 0.70912912999137 5 CA1 Unknown Deep 0.21491510853213 87.865644744884 0.29 50.223156990831
9 6487 0.98871615306594 4 CA1 Pyramidal Cell Deep 1.6956990904887 126.66179291741 0.7 33.120682094949
10 10267 1.5657266686997 4 CA1 Pyramidal Cell Deep 1.753189831499 168.7040213542 0.78 40.851622265124
11 11614 1.7706796099779 3 CA1 Wide Interneuron Deep 1.5498536249354 145.0340574231 0.73 31.604691887523
12 13788 2.1029206712984 3 CA1 Pyramidal Cell Deep 1.0153756890049 95.926112600262 0.69 40.998707074045
13 14272 2.1745626014436 5 CA1 Narrow Interneuron Deep 0.42040358744395 104.28974588427 0.34 72.501593988733
14 15060 2.2945000574615 4 CA1 Pyramidal Cell Deep 2.390438247012 101.10091196055 0.79 35.364359059991
15 19887 3.0300549084894 3 CA1 Wide Interneuron Deep 3.9724443103535 120.55267045695 0.77 46.410830428599
16 28245 4.3032477103336 3 CA1 Pyramidal Cell Deep 4.6733935209772 125.57682333871 0.74 47.419552590546
17 119888 18.263782286599 3 CA1 Narrow Interneuron Deep 3.5699986654211 188.25090161017 0.34 130.79543829492
18 107447 16.368594914325 4 CA1 Narrow Interneuron Deep 1.8148482507655 131.05755370984 0.24 78.174527242703