---
license: cc-by-4.0
pretty_name: NanoPLM UniRef50 3M Subset
tags:
  - biology
  - protein
  - proteins
  - uniref
  - uniref50
  - protein-language-model
  - bioinformatics
size_categories:
  - 1M<n<10M
configs:
  - config_name: default
    data_files:
      - split: train
        path: data/train-*.parquet
      - split: validation
        path: data/validation-*.parquet
---

# NanoPLM UniRef50 3M Subset

A 3,000,000-sequence subset of [UniRef50](https://www.uniprot.org/help/uniref) protein
sequences, pre-split into train/validation sets. Sequences are filtered to a length of
**20 to 512 amino acids** (inclusive). Intended for pretraining and experimenting with
small protein language models (PLMs).

## Splits

| Split      | File               | Sequences |
| ---------- | ------------------ | --------: |
| train      | `train.fasta`      | 2,950,200 |
| validation | `validation.fasta` |    49,800 |
| **total**  |                    | **3,000,000** |

## Format

The dataset is provided as **Parquet** (powers the Dataset Viewer and `load_dataset`).
Each row is a UniRef50 cluster representative with the header parsed into columns:

| Column     | Type   | Description                                            |
| ---------- | ------ | ------------------------------------------------------ |
| `id`       | string | UniRef50 cluster ID, e.g. `UniRef50_A0A4Y2FNR1`        |
| `name`     | string | Cluster name / protein description                     |
| `n`        | int64  | Number of members in the cluster (`n=` field)          |
| `tax`      | string | Lowest common taxon (`Tax=` field)                     |
| `tax_id`   | string | NCBI taxonomy ID (`TaxID=` field)                      |
| `rep_id`   | string | Representative member ID (`RepID=` field)              |
| `sequence` | string | Amino-acid sequence                                    |
| `length`   | int64  | Sequence length (between 20 and 512, inclusive)        |

The original **FASTA** files (`train.fasta`, `validation.fasta`) are also included in the repo
for direct use.

## Usage

Load with the 🤗 `datasets` library:

```python
from datasets import load_dataset

ds = load_dataset("heispv/nanoplm-uniref50-3M-subset")
print(ds)                       # DatasetDict with 'train' and 'validation'
print(ds["train"][0]["sequence"])

# Stream without downloading everything:
ds = load_dataset("heispv/nanoplm-uniref50-3M-subset", split="train", streaming=True)
for ex in ds:
    seq = ex["sequence"]
    ...
    break
```

Or download the raw FASTA files directly:

```python
from huggingface_hub import hf_hub_download

# Train
train_path = hf_hub_download(
    repo_id="heispv/nanoplm-uniref50-3M-subset",
    filename="train.fasta",
    repo_type="dataset",
)

# Validation
val_path = hf_hub_download(
    repo_id="heispv/nanoplm-uniref50-3M-subset",
    filename="validation.fasta",
    repo_type="dataset",
)
```

## Source & License

Sequences are derived from UniRef50, part of the
[UniProt](https://www.uniprot.org/) databases. UniProt data is distributed under the
[Creative Commons Attribution 4.0 (CC BY 4.0)](https://creativecommons.org/licenses/by/4.0/)
license. Please cite UniProt when using this dataset:

> The UniProt Consortium. *UniProt: the Universal Protein Knowledgebase.*
> Nucleic Acids Research.