# Title of Dataset
---
Short-term synatpic dynamics from excitatory to inhibitory neurons connections in human cortex

Dataset shared here includes 1) row traces of connectivity data, 2) metadata for patched neurons, 3) analyzed values of connectivity data, and 4) classifier analysis codes and results.

## Description of the data and file structure

connectivity_data folder-

This folder (20 Hz, and 50 Hz folder) contains all connectivity assayed recordings including stimulus traces,
and following pre- and post-synaptic neuron response traces (*_struct_qc.mat).
for the naming convention:
e.g., 2017_06_20_163514_PulseTrain_20Hz_DA_0_AD9_AD2_struct_qc.mat
[year_month_day_time]_[stimulation_protocol]_[pre_cell_id]_[post_cell_id]_struct_qc.mat

20 Hz and 50 Hz 

combined3, struct with 9 fields
pre_cell: presynaptic cell electrode id
post_cell: postsynaptic cell electrode id
stim_name: stimulus name
stim_pretraces: presynaptic cell responses
pulse_start: pulse start timing
recovery_interval: recovery pulse interval
pretraces: presynaptic cell voltage responses
posttraces: postsynaptic cell voltage responses
qc: manual trace quality control info

and their metadata
such as acute vs slice culture, epilepsy vs tumor, mFISH staining results, classifier PVALB probability scores,
and some analyses results such as EPSP amplitudes (*_amp_results.mat).
for the naming convention:
e.g., 2017_06_20_163514_PulseTrain_20Hz_DA_0_AD9_AD2_amp_results.mat
[year_month_day_time]_[stimulation_protocol]_[pre_cell_id]_[post_cell_id]_[EPSP_amplitude]_results.mat

variables contains
PVALB: postsynaptic cell identity based on the classifier
acute: source type of human slice preparations, i.e., acute = 1, slice culture = 0
amp: EPSP response amplitudes for initial 8 puses
amp_avg: averaged EPSP amplitudes for initial 8 pulses
epilepsy: source type of disease conditions, i.e., epilepsy = 1, tumor = 0
pv_prob: PVALB probability values obtained from the classifier in postsynaptic cell 
recovery: EPSP response amplitudes for recovery 4 pulses
recovery_amp: averaged EPSP amplitudes for recovery 4 pulses

Figure 4: 50 Hz (e,f) and 20 Hz (g,h)
Figure 4 - Figure supplement 1 (a,b,c,d)
Figure 4 - Figure supplement 2 (a,b,c)
Figure 4 - Figure supplement 3

Classifier-
"Classifier folder is on Zenodo".

Notebooks with classifier code and plots for acute/culture cells:
synphys_culture_classifier_analysis_acute.ipynb
synphys_culture_classifier_analysis_cultureipynb

Output - CSVs containing classifier predictions for acute/culture cells:
synphs_acute_pv_prediction_2023-02-24.csv
synphs_culture_pv_prediction_2023-03-06.csv

Input - extracted intrinsic ephys features for multi-patch recorded cells, from new dataset and from previously published "pipeline" dataset:
synphys_complete_intrinsic_2021_10_13.csv
synphs_intrinsic_pipeline_2021_10_27.csv

Input - reference dataset of extracted intrinsic ephys features from patch-seq pipeline cells, and cell metadata including transcriptomic types and culture/acute status:
IVSCC_ephys_features.csv
MET_METc_interneuron_metadata.csv

Figure 6 (a,d,e)
Figure 6 - Figure supplement 1
Figure 6 - Figure supplement 2

## Sharing/Access information


## Code/Software

Please feel free to contact Meanhwan Kim (meanhwank@alleninstitute.org) if you have any questions for using these dataset.