kenobi/GeneLab_BPS_BenchmarkData

---

task_categories:
- image-classification
- image-segmentation
- feature-extraction
- zero-shot-classification
- fill-mask
size_categories:
- 10K<n<100K
tags:
- biology
- cells
- radiation
- microscopy
- GeneLab
---

# Dataset Card for Dataset GeneLab_BPS_BenchmarkData

## Dataset Details

This dataset is a version of the Biological and Physical Sciences (BPS) Microscopy Benchmark Training Dataset managed by NASA and hosted on an S3 Bucket here: https://registry.opendata.aws/bps_microscopy/

Fluorescence microscopy images of individual nuclei from mouse fibroblast cells, irradiated with Fe particles or X-rays with fluorescent foci indicating 53BP1 positivity, a marker of DNA damage. These are maximum intensity projections of 9-layer microscopy Z-stacks.

### Dataset Description

- **Curated by:** Frank Soboczenski
- **Funded by [optional]:** [More Information Needed]
- **Shared by [optional]:** [More Information Needed]
- **Language(s) (NLP):** [More Information Needed]
- **License:** There are no restrictions on the use of this data.

## Further Documentation

https://docs.google.com/document/d/e/2PACX-1vTIjUPenLxVX0stErsBbK884QMJW_Ur1mqHJ9K3KIZl3klT90cxHDppsEvz5Z6Skdu13X8tzghqyWcN/pub

### Update Frequency

New fluorescence microscopy mouse fibroblast nuclei data is added whenever it is available.

## Dataset Structure

GeneLab_BPS_BenchmarkData/<br>
├── README.md<br>
└── data/<br>
├── High_Energy_Ion_Fe_Nuclei/<br>
│ └── .tif<br>
│ └── ...<br>
└── XRay_irradiated_Nucleiation/<br>
└── .tif<br>
└── ...<br>

## How to Cite

Biological and Physical Sciences (BPS) Microscopy Benchmark Training Dataset was accessed on DATE from https://huggingface.co/datasets/kenobi/GeneLab_BPS_BenchmarkData

## Publications

- Dose, LET and Strain Dependence of Radiation-Induced 53BP1 Foci in 15 Mouse Strains Ex Vivo Introducing Novel DNA Damage Metrics by Sébastien Penninckx, Egle Cekanaviciute, Charlotte Degorre, Elodie Guiet, Louise Viger, Stéphane Lucasb, Sylvain V. Costes
- NASA SMD AI Workshop Report by SMD Artificial Intelligence (AI) Initiative

## Dataset Card Authors [optional]

Lauren Sanders ([e-mail])

## Dataset Card Contact

Frank Soboczenski ([e-mail])

原始信息汇总

数据集卡片：GeneLab_BPS_BenchmarkData

数据集详情

数据集描述

• 任务类别:
  • 图像分类
  • 图像分割
  • 特征提取
  • 零样本分类
  • 填充掩码
• 规模类别:
  • 10K<n<100K
• 标签:
  • 生物学
  • 细胞
  • 辐射
  • 显微镜
  • GeneLab

数据集详细信息

• 数据来源: 由NASA管理的生物和物理科学（BPS）显微镜基准训练数据集。

• 数据内容: 荧光显微镜图像，包含来自经Fe粒子或X射线照射的小鼠成纤维细胞的单个细胞核，荧光焦点指示53BP1阳性，这是DNA损伤的标志。这些是9层显微镜Z堆栈的最大强度投影。

• 数据格式: 数据集包含以下结构：

  GeneLab_BPS_BenchmarkData/ ├── README.md └── data/ ├── High_Energy_Ion_Fe_Nuclei/ │ └── .tif │ └── ... └── XRay_irradiated_Nucleiation/ └── .tif └── ...

数据集维护

• 维护者: Frank Soboczenski
• 更新频率: 当有新的小鼠成纤维细胞荧光显微镜数据可用时，数据集会更新。

数据集许可

• 许可: 该数据的使用没有限制。

引用信息

• 引用格式:

  生物和物理科学（BPS）显微镜基准训练数据集，访问日期：DATE，来源：https://huggingface.co/datasets/kenobi/GeneLab_BPS_BenchmarkData

相关出版物

• 出版物1:
  • 标题: Dose, LET and Strain Dependence of Radiation-Induced 53BP1 Foci in 15 Mouse Strains Ex Vivo Introducing Novel DNA Damage Metrics
  • 作者: Sébastien Penninckx, Egle Cekanaviciute, Charlotte Degorre, Elodie Guiet, Louise Viger, Stéphane Lucasb, Sylvain V. Costes
• 出版物2:
  • 标题: NASA SMD AI Workshop Report
  • 作者: SMD Artificial Intelligence (AI) Initiative

数据集卡片作者

• 作者: Lauren Sanders ([e-mail])

数据集卡片联系人

• 联系人: Frank Soboczenski ([e-mail])