Details for ham21_18-22_amp

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  • Date & time: 2017-08-17, 11:36:00

  • Location: Alexandria

  • Animal subject: ham21

  • 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 0:35:16 by Peter Petersen
    Updated: 2023-08-14 10:55:39 by Peter Petersen

  • Notes:
    Control. No stimulation. 52 trials.
    Buzsaki64_2shanks_poly5
    Control, Stim, PostStim

Epochs

Epochs Behavioral paradigm Maze type Built maze Manipulation Duration Notes
ham21_18 Homecage_Sleep Homecage Homecage_Mouse 4134.708
ham21_19 Homecage_Sleep Homecage Homecage_Mouse 4134.708
ham21_20 ThetaMaze_AlternativeRunning Theta maze Theta_Maze_Viktor 4134.708
ham21_21 ThetaMaze_AlternativeRunning Theta maze Theta_Maze_Viktor 4134.708
ham21_22 Homecage_Sleep Homecage Homecage_Mouse 4134.708

Extracellular

Equipment

File format

Sampling rate

nSamples

nChannels

Spike groups

Least significant bit
Intan Technologies, RHD2000 USB interface board (256ch) dat 20000 82694200 64 2 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 62, 37, 46, 33, 53, 59, 38, 47, 63, 54, 60, 39, 48, 34, 51, 57, 41, 44, 64, 52, 58, 42, 40, 35, 49, 55, 43, 36, 61, 50, 56, 45
2 27, 4, 11, 1, 20, 28, 5, 12, 31, 17, 25, 6, 13, 2, 18, 23, 7, 14, 32, 22, 24, 8, 15, 3, 26, 21, 9, 16, 29, 30, 19, 10
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 ham21_20-21_concat.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 1
Ripple 64 1
Bad 31

Analysis tags

Tag

Value

Description
prebehaviortime 1
optiTrackExtraPulses 2,1,1,1
useOptitrackTime 0
optiTrack_length_unit 1
opto_pulse_amplitude 0.5
optiTrack_offset 0,28,0
reward_points_linearized 105,180
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 21 14990

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 131164 31.723072504516 2 CA1 Narrow Interneuron Deep 0.29733768412064 82.043289343812 0.37 0
2 5658 1.3708901175238 1 CA1 Pyramidal Cell Deep 6.3626723223754 322.74112410401 0.72 78.996418936256
3 5481 1.3260362549344 1 CA1 Pyramidal Cell Deep 6.3856960408685 274.48972004023 0.73 76.547206328055
4 8459 2.0462813740667 1 CA1 Pyramidal Cell Deep 2.718997517437 92.050317560912 0.74 77.541487930138
5 7246 1.7526265997585 1 CA1 Pyramidal Cell Deep 3.5881865857025 179.47451545309 0.73 78.187703907804
6 18408 4.4537355337822 1 CA1 Wide Interneuron Deep 5.6497175141243 177.97978687011 0.73 93.277549838994
7 11313 2.7489954308552 1 CA1 Wide Interneuron Deep 4.2429063908778 206.26621654068 0.73 80.360891876339
8 11933 2.8889461314317 1 CA1 Pyramidal Cell Deep 4.9442721863739 269.56330653156 0.72 83.849827123124
9 7394 1.7954925705849 1 CA1 Wide Interneuron Deep 2.028671896132 113.86147293999 0.67 87.23094318432
10 16067 3.8878684722989 1 CA1 Pyramidal Cell Deep 3.6098836123732 276.68088136078 0.72 98.81285182063
11 25705 6.2224748383742 1 CA1 Pyramidal Cell Deep 5.8354405757635 177.60765822532 0.68 98.225426812855
12 15611 3.7839667431717 2 CA1 Pyramidal Cell Deep 7.0463134968932 160.57885923855 0.71 101.52007128563
13 21397 5.1773132393798 2 CA1 Pyramidal Cell Deep 6.5897088376875 139.56366781167 0.67 104.91488643477
14 38407 9.2916797927036 2 CA1 Pyramidal Cell Deep 6.5873408493243 185.22987921392 0.72 117.23891300377
15 57143 13.820860145922 1 CA1 Narrow Interneuron Deep 0.45499886250284 82.079289577911 0.4 138.52709308219
16 2429 0.58911709367995 1 CA1 Pyramidal Cell Deep 0.8233841086867 105.01901841343 0.65 72.561332725792
17 1437 0.35342313921057 1 CA1 Pyramidal Cell Deep 0 521.89821335733 0.64 120.34135596309
18 102243 24.728179699614 1 CA1 Narrow Interneuron Deep 0.068464344747318 383.13517378359 0.35 262.6703052336
19 3170 0.77884826007694 1 CA1 Pyramidal Cell Deep 3.1545741324921 305.29702387475 0.71 82.214359060951
20 9815 2.4075255102041 2 CA1 Wide Interneuron Deep 0.71319409067753 329.18029973351 0.72 101.13562837115
21 84132 20.348357632955 1 CA1 Narrow Interneuron Deep 0.74882327770646 185.10647809367 0.27 133.07235498718