Details for ham25_41-43_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 0:06:52 by Peter Petersen
    Updated: 2023-08-14 11:02:52 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_41 Homecage_Sleep Homecage Homecage_Mouse 2223.108
ham25_42 ThetaMaze_AlternativeRunning Theta maze Theta_Maze_Viktor 2223.108
ham25_43 Homecage_Sleep Homecage Homecage_Mouse 2223.108

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 44462160 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_42.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 119,195
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 13 14822

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 5087 2.2897959857945 5 CA1 Pyramidal Cell Deep 2.1623746805583 228.4035436775 0.79 45.331551422223
2 8895 4.0028314576202 3 CA1 Wide Interneuron Deep 5.2838673412029 177.27787401274 0.75 60.660151018201
3 13177 5.9283439265495 3 CA1 Wide Interneuron Deep 4.8569477119223 126.77628492177 0.77 50.440928482351
4 42522 19.128148767713 3 CA1 Narrow Interneuron Deep 2.0459997177931 173.47222648477 0.39 0
5 92935 41.805106111242 4 CA1 Narrow Interneuron Deep 2.8944961532254 136.64701037208 0.32 0
6 2182 0.98227749906567 4 CA1 Narrow Interneuron Deep 0.45829514207149 177.35439342882 0.3 27.96841643285
7 3174 1.429564460487 5 CA1 Pyramidal Cell Deep 0.94517958412098 119.8122235693 0.77 55.124972178832
8 4299 1.9353227647033 3 CA1 Pyramidal Cell Deep 0.69783670621075 269.38821465205 0.81 49.34716550277
9 5890 2.6533333885923 4 CA1 Wide Interneuron Deep 2.7164685908319 104.61936149244 0.72 66.352800788386
10 7643 3.4388748764499 6 CA1 Unknown Cortical 0.3925160277378 108.13619950403 0.34 0
11 9578 4.31421386177 3 CA1 Pyramidal Cell Deep 3.1321779077052 299.03470259403 0.78 50.700112393464
12 39331 17.695475139547 4 CA1 Narrow Interneuron Deep 0.76275711271008 153.66843259311 0.29 107.12145003136
13 110145 49.54840639086 5 CA1 Narrow Interneuron Deep 8.0711789005402 353.03034705529 0.26 0