Datasets:
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---
dataset_info:
features:
- name: seq
dtype: string
- name: label
dtype: int64
splits:
- name: train
num_bytes: 7657550
num_examples: 23375
- name: test
num_bytes: 1550597
num_examples: 4791
download_size: 9032101
dataset_size: 9208147
configs:
- config_name: default
data_files:
- split: train
path: data/train-*
- split: test
path: data/test-*
license: apache-2.0
task_categories:
- text-classification
tags:
- chemistry
- biology
- medical
size_categories:
- 10K<n<100K
---
# Dataset Card for Cloning CLF Dataset
### Dataset Summary
Protein structure determination includes a series of experimental stages to yield stable proteins for X-ray crystallography. Specifically, the proteins are first selected and expressed, then purified for crystal structure determination. Each step corresponds to a "stage tag" to denote whether the protein is stable under a certain stage.
## Dataset Structure
### Data Instances
For each instance, there is a string representing the protein sequence and an integer label indicating whether a protein sequence is stable under a certain stage. See the [Cloning CLF dataset viewer](https://huggingface.co/datasets/Bo1015/cloning_clf/viewer) to explore more examples.
```
{'seq':'MEHVIDNFDNIDKCLKCGKPIKVVKLKYIKKKIENIPNSHLINFKYCSKCKRENVIENL'
'label':1}
```
The average for the `seq` and the `label` are provided below:
| Feature | Mean Count |
| ---------- | ---------------- |
| seq | 315 |
| label (0) | 0.6 |
| label (1) | 0.4 |
### Data Fields
- `seq`: a string containing the protein sequence
- `label`: a float value indicating the $k_cat$ score of the protein sequence.
### Data Splits
The cloning clf dataset has 2 splits: _train_ and _test_. Below are the statistics of the dataset.
| Dataset Split | Number of Instances in Split |
| ------------- | ------------------------------------------- |
| Train | 23,375 |
| Test | 4,791 |
### Source Data
#### Initial Data Collection and Normalization
The dataset is collected from [PredPPCrys](https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0105902), which manually annotated thousands of proteins with different experimental procedures.
### Licensing Information
The dataset is released under the [Apache-2.0 License](http://www.apache.org/licenses/LICENSE-2.0).
### Citation
If you find our work useful, please consider citing the following paper:
```
@misc{chen2024xtrimopglm,
title={xTrimoPGLM: unified 100B-scale pre-trained transformer for deciphering the language of protein},
author={Chen, Bo and Cheng, Xingyi and Li, Pan and Geng, Yangli-ao and Gong, Jing and Li, Shen and Bei, Zhilei and Tan, Xu and Wang, Boyan and Zeng, Xin and others},
year={2024},
eprint={2401.06199},
archivePrefix={arXiv},
primaryClass={cs.CL},
note={arXiv preprint arXiv:2401.06199}
}
``` |