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# CAPSUL: A Comprehensive Human Protein Benchmark for Subcellular Localization
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### π Dataset Specifications
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This repository contains the complete dataset of the paper: **"CAPSUL: A Comprehensive Human Protein Benchmark for Subcellular Localization"** *Accepted by **ICLR 2026***.
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Here we introduce the protein dataset used in our **CAPSUL** benchmark evaluation, with comprehensive 3D information and fine-grained localization annotations. Data is derived from AlphaFold2, UniProt, and the Human Protein Atlas (HPA).
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### π Data Structure
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```
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CAPSUL/
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βββ AlphaFold_pdb.tar # Original AlphaFold2 PDB files
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βββ coordinate.tar # Extracted C-alpha (CΞ±) coordinates
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βββ localization/ # Annotations and sequence features
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βββ union.csv # 20-class annotations (UniProt + HPA), used for evaluation in the paper
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βββ uniprot_detail.csv # Original raw annotations (UniProt)
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βββ hpa_detail.csv # Original raw annotations (HPA)
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βββ uniprot_20.csv # 20-class annotations (UniProt)
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βββ hpa_20.csv # 20-class annotations (HPA)
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```
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*Note:* The implementation code is available at https://github.com/getbetter-hyccc/CAPSUL
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### π Detailed Component Breakdown
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- **`AlphaFold_pdb.tar`**: Contains the full original PDB files predicted by AlphaFold2. These include atomic coordinates, pLDDT scores, and complete protein metadata.
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- **`coordinate.tar`**: To facilitate faster training for geometric models, we provide pre-extracted C-alpha (CΞ±) coordinates. This reduces I/O overhead by focusing on the protein backbone trajectory.
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- **`localization/`**: Includes both the original raw labels and our
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# CAPSUL: A Comprehensive Human Protein Benchmark for Subcellular Localization
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| 2 |
+
|
| 3 |
+
### π Dataset Specifications
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| 4 |
+
|
| 5 |
+
This repository contains the complete dataset of the paper: **"CAPSUL: A Comprehensive Human Protein Benchmark for Subcellular Localization"** *Accepted by **ICLR 2026***.
|
| 6 |
+
|
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+
Here we introduce the protein dataset used in our **CAPSUL** benchmark evaluation, with comprehensive 3D information and fine-grained localization annotations. Data is derived from AlphaFold2, UniProt, and the Human Protein Atlas (HPA).
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+
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### π Data Structure
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+
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```
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CAPSUL/
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+
βββ AlphaFold_pdb.tar # Original AlphaFold2 PDB files
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+
βββ coordinate.tar # Extracted C-alpha (CΞ±) coordinates
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+
βββ localization/ # Annotations and sequence features
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+
βββ union.csv # 20-class annotations (UniProt + HPA), used for evaluation in the paper
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+
βββ uniprot_detail.csv # Original raw annotations (UniProt)
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+
βββ hpa_detail.csv # Original raw annotations (HPA)
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βββ uniprot_20.csv # 20-class annotations (UniProt)
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βββ hpa_20.csv # 20-class annotations (HPA)
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```
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+
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*Note:* The implementation code is available at https://github.com/getbetter-hyccc/CAPSUL
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+
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### π Detailed Component Breakdown
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+
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+
- **`AlphaFold_pdb.tar`**: Contains the full original PDB files predicted by AlphaFold2. These include atomic coordinates, pLDDT scores, and complete protein metadata.
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| 28 |
+
- **`coordinate.tar`**: To facilitate faster training for geometric models, we provide pre-extracted C-alpha (CΞ±) coordinates. This reduces I/O overhead by focusing on the protein backbone trajectory.
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+
- **`localization/`**: Includes both the original raw labels and our integrated 20-class fine-grained labels. These annotations are specifically curated to evaluate model performance across diverse subcellular compartments, whose processing details can be found in our paper.
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