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- # CAPSUL: A Comprehensive Human Protein Benchmark for Subcellular Localization
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-
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- ### πŸ“Š 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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-
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- ### πŸ“‚ Data Structure
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-
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- ```
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- CAPSUL/
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- β”œβ”€β”€ AlphaFold_pdb.tar # Original AlphaFold2 PDB files
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- β”œβ”€β”€ coordinate.tar # Extracted C-alpha (CΞ±) coordinates
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- └── localization/ # Annotations and sequence features
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- β”œβ”€β”€ union.csv # 20-class annotations (UniProt + HPA), used for evaluation in the paper
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- β”œβ”€β”€ uniprot_detail.csv # Original raw annotations (UniProt)
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- β”œβ”€β”€ hpa_detail.csv # Original raw annotations (HPA)
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- β”œβ”€β”€ uniprot_20.csv # 20-class annotations (UniProt)
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- └── 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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- ### πŸ” 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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- - **`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 standardized 20-class fine-grained labels. These annotations are specifically curated to evaluate model performance across diverse cellular compartments, whose processing details can be found in our paper.
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-
 
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+ # CAPSUL: A Comprehensive Human Protein Benchmark for Subcellular Localization
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+
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+ ### πŸ“Š Dataset Specifications
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+
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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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+
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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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+ ### πŸ“‚ Data Structure
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+
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+ ```
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+ CAPSUL/
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+ β”œβ”€β”€ AlphaFold_pdb.tar # Original AlphaFold2 PDB files
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+ β”œβ”€β”€ coordinate.tar # Extracted C-alpha (CΞ±) coordinates
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+ └── localization/ # Annotations and sequence features
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+ β”œβ”€β”€ union.csv # 20-class annotations (UniProt + HPA), used for evaluation in the paper
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+ β”œβ”€β”€ uniprot_detail.csv # Original raw annotations (UniProt)
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+ β”œβ”€β”€ hpa_detail.csv # Original raw annotations (HPA)
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+ β”œβ”€β”€ uniprot_20.csv # 20-class annotations (UniProt)
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+ └── 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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+ ### πŸ” 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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+ - **`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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+