Details for ham25_38-40_amp

Back to list of sessions

  • 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 0:09:11 by Peter Petersen
    Updated: 2023-08-14 11:02:36 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_38 Homecage_Sleep Homecage Homecage_Mouse 5177.412
ham25_39 ThetaMaze_AlternativeRunning Theta maze Theta_Maze_Viktor 5177.412
ham25_40 Homecage_Sleep Homecage Homecage_Mouse 5177.412

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 103548240 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_39.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 118,195
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 14845

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 13844 2.6744577797169 3 CA1 Pyramidal Cell Deep 3.3227390927478 248.28481108114 0.8 49.22040338058
2 26371 5.0951528636668 3 CA1 Pyramidal Cell Deep 6.3327139660991 321.8211385243 0.79 40.638055341092
3 65191 12.591893311233 3 CA1 Narrow Interneuron Deep 1.3498795846052 165.78868185906 0.39 0
4 75724 14.626426712324 4 CA1 Narrow Interneuron Deep 3.0241402989805 132.75725587695 0.33 81.323617675422
5 169234 32.687461385795 5 CA1 Narrow Interneuron Deep 5.400805984613 358.58020281765 0.23 0
6 170236 32.881262967619 4 CA1 Narrow Interneuron Deep 3.0604572475857 171.81337232226 0.31 0
7 869 0.18386519055009 4 CA1 Wide Interneuron Deep 0 277.14734235945 0.82 48.696061221077
8 2123 0.41062251233572 4 CA1 Wide Interneuron Deep 0.47103155911446 165.32650022319 0.75 36.60616293905
9 4654 0.9003087832792 5 CA1 Pyramidal Cell Deep 1.2892135797164 341.91946606959 0.8 37.982548514931
10 16900 3.2652754609564 3 CA1 Pyramidal Cell Deep 3.491124260355 113.72894536203 0.78 52.899657246329
11 17191 3.3207505970363 5 CA1 Pyramidal Cell Deep 4.5954278401489 190.30016832741 0.77 76.818804157954
12 74280 14.347400713785 4 CA1 Narrow Interneuron Deep 1.0096930533118 135.32858956103 0.28 78.31595745773
13 4077 0.78760004193965 6 CA1 Narrow Interneuron Cortical 0.49055678194751 83.440018044621 0.39 0