README.md

---
license: cc-by-4.0
task_categories:
  - time-series-forecasting
  - tabular-regression
tags:
  - neuroscience
  - electrophysiology
  - striatum
  - Neuropixels
  - neural-decoding
  - MitoPark
  - mouse
  - locomotion
configs:
- config_name: noBin
  data_files:
  - split: train
    path: noBin/train-*

- config_name: 1ms
  data_files:
  - split: train
    path: data/1ms/*.parquet

- config_name: 2ms
  data_files:
  - split: train
    path: data/2ms/*.parquet

- config_name: 5ms
  data_files:
  - split: train
    path: data/5ms/*.parquet

- config_name: 10ms
  data_files:
  - split: train
    path: data/10ms/*.parquet

- config_name: 25ms
  data_files:
  - split: train
    path: data/25ms/*.parquet

- config_name: 50ms
  data_files:
  - split: train
    path: data/50ms/*.parquet

- config_name: 100ms
  data_files:
  - split: train
    path: data/100ms/*.parquet

- config_name: 200ms
  data_files:
  - split: train
    path: data/200ms/*.parquet

- config_name: 500ms
  data_files:
  - split: train
    path: data/500ms/*.parquet

---

# MitoPark Striatal Neural-Locomotion Dataset

## Overview

High-density extracellular recordings from mouse brain during treadmill locomotion, designed for neural decoding of movement kinematics.

## Subsets

| Subset | Description | Rows |
|--------|-------------|------|
| `noBin` | Raw spikes (session, neuron_id, spike_time, speed) | 130,321,346 |
| `1ms` | Binned at 1ms | - |
| `2ms` | Binned at 2ms | - |
| `5ms` | Binned at 5ms | - |
| `10ms` | Binned at 10ms | - |
| `25ms` | Binned at 25ms | - |
| `50ms` | Binned at 50ms | - |
| `100ms` | Binned at 100ms | - |
| `200ms` | Binned at 200ms | - |
| `500ms` | Binned at 500ms | - |

## Data Acquisition

| Parameter | Value |
|-----------|-------|
| Recording system | Neuropixels 1.0 |
| Target regions | DLS (dorsolateral striatum), DMS (dorsomedial striatum) |
| Animal model | MitoPark mouse (progressive dopaminergic neurodegeneration) |
| Sessions | 73 recordings |
| Neurons | 100-339 units per session |

## Processing Pipeline

### Spike Sorting
- **Software**: Kilosort 4
- **Curation**: Automated quality metrics (ISI violations, SNR, amplitude stability)
- **Output**: `pixelCluster_imec0.mat` containing spike times, cluster IDs, waveform metrics, and channel depth

### Behavioral Signal
- **Source**: Analog belt encoder (25 kHz native sampling)
- **Calibration**: V₀ baseline correction via adaptive rolling window (60s) from detected immobility periods
- **Conversion**: 40 cm/s/V (Teensy calibration)
- **Filtering**: 8th-order Butterworth low-pass (5 Hz cutoff)
- **Smoothing**: 100 ms moving average
- **Final sampling**: 200 Hz
- **Output**: `belt_speed.mat` containing aligned speed trace (cm/s)

### Dataset Generation

#### Raw spikes (`noBin`)
Each spike event paired with interpolated speed at spike time.

| Column | Type | Description |
|--------|------|-------------|
| `session` | string | Recording session identifier |
| `neuron_id` | int32 | Neuron index (1-indexed) |
| `spike_time` | float32 | Spike timestamp (seconds) |
| `speed` | float32 | Treadmill speed at spike time (cm/s) |

#### Binned subsets (`1ms` to `500ms`)
Spike counts aggregated in temporal bins with lag structure for temporal modeling.

| Column | Type | Description |
|--------|------|-------------|
| `N{i}_t2` | float32 | Neuron i spike count, 2 bins prior |
| `N{i}_t1` | float32 | Neuron i spike count, 1 bin prior |
| `N{i}_t` | float32 | Neuron i spike count, current bin |
| `speed` | float32 | Mean treadmill speed in current bin (cm/s) |

Structure: `[N1_t2, N1_t1, N1_t, N2_t2, N2_t1, N2_t, ..., Nn_t2, Nn_t1, Nn_t, speed]`

## Usage

```python
from datasets import load_dataset

# Raw spike events
ds = load_dataset("opsecsystems/mitopark-striatal-neural", "noBin")

# Binned at 5ms resolution
ds = load_dataset("opsecsystems/mitopark-striatal-neural", "5ms")

# Access data
X = ds['train'].to_pandas().drop('speed', axis=1).values
y = ds['train']['speed']
```

## File Structure

```
mitopark-striatal-neural/
├── noBin/
│   └── train-00000-of-00001.parquet
├── data/
│   ├── 1ms/*.parquet
│   ├── 2ms/*.parquet
│   ├── 5ms/*.parquet
│   ├── 10ms/*.parquet
│   ├── 25ms/*.parquet
│   ├── 50ms/*.parquet
│   ├── 100ms/*.parquet
│   ├── 200ms/*.parquet
│   └── 500ms/*.parquet
└── README.md
```

## Citation

```bibtex
@dataset{mitopark_striatal_neural_2025,
  author = {Leutgeb Laboratory},
  title = {MitoPark Striatal Neural-Locomotion Dataset},
  year = {2025},
  publisher = {Hugging Face},
  url = {https://huggingface.co/datasets/opsecsystems/mitopark-striatal-neural}
}
```

## License

CC-BY-4.0

## Contact

Leutgeb Laboratory, UC San Diego