Details for ham25_51-53_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 0:00:04 by Peter Petersen
    Updated: 2023-08-14 10:57:34 by Peter Petersen

  • Notes:
    Sham session. 20Control 10Stim 30PostStim
    Buzsaki 5×12
    ‘Control’,’Stim’,’PostStim’

Epochs

Epochs Behavioral paradigm Maze type Built maze Manipulation Duration Notes
ham25_51 Homecage_Sleep Homecage Homecage_Mouse 2715.372
ham25_52 ThetaMaze_AlternativeRunning Theta maze Theta_Maze_Viktor 2715.372
ham25_53 Homecage_Sleep Homecage Homecage_Mouse 2715.372

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 54307440 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, 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
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_52.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 4
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 16 14753

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 5025 1.8520943953357 4 CA1 Pyramidal Cell Deep 3.18407960199 136.78706936936 0.81 46.644031977737
2 7666 2.8234093710452 5 CA1 Pyramidal Cell Deep 0.91312288025046 177.8949351123 0.8 34.378443002654
3 6803 2.5609432884323 3 CA1 Pyramidal Cell Deep 0.58797589298839 318.18045997743 0.77 77.97234800027
4 9887 3.6429512761623 3 CA1 Wide Interneuron Deep 3.3377161929807 126.26287099276 0.8 52.870167126868
5 13712 5.052611905939 5 CA1 Pyramidal Cell Deep 4.2298716452742 126.2576370354 0.68 46.501952438923
6 20900 7.6974040707335 3 CA1 Pyramidal Cell Deep 3.5885167464115 90.092113744838 0.72 0
7 82718 30.464239910806 4 CA1 Narrow Interneuron Deep 2.7563529098866 118.69385438582 0.3 0
8 123969 45.656803104526 5 CA1 Narrow Interneuron Deep 7.2840790842872 301.04303178336 0.25 0
9 1295 0.47700031555689 5 CA1 Pyramidal Cell Deep 0 386.92666509389 0.77 48.290906983747
10 2252 0.83220408068241 4 CA1 Pyramidal Cell Deep 0.88809946714032 74.437174092738 0.67 41.232808626806
11 4077 1.501797515702 5 CA1 Pyramidal Cell Deep 0 462.8768032459 0.72 64.200992888557
12 4786 1.762915524871 4 CA1 Narrow Interneuron Deep 0.41788549937317 89.765142932341 0.42 43.881498561418
13 5553 2.0472490933651 5 CA1 Pyramidal Cell Deep 3.7817396002161 99.832906249255 0.73 34.60809712519
14 8474 3.1213138366509 5 CA1 Wide Interneuron Deep 2.124144441822 143.92400672627 0.7 49.911222830959
15 10690 3.9372100082773 5 CA1 Pyramidal Cell Deep 2.245088868101 171.77138152689 0.77 44.779155124142
16 48897 18.008435093986 4 CA1 Narrow Interneuron Deep 0.55218111540585 237.28341171851 0.26 117.72217866264