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- ---
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- license: mit
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- ---
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- # Description
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- Subcellular Localization prediction is a 10-class classification task to predict where a protein locates in the cell, where each input protein *x* is mapped to a label *y* ∈ {0, 1, ..., 9}.
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-
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- The digital label means:
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-
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- 0: Nucleus
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-
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- 1: Cytoplasm
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-
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- 2: Extracellular
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-
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- 3: Mitochondrion
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-
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- 4: Cell.membrane
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-
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- 5: Endoplasmic.reticulum
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-
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- 6: Plastid
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-
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- 7: Golgi.apparatus
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-
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- 8: Lysosome/Vacuole
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-
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- 9: Peroxisome
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-
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- # Splits
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-
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- **Structure type:** AF2
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-
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- The dataset is from [**DeepLoc: prediction of protein subcellular localization using deep learning**](https://academic.oup.com/bioinformatics/article/33/21/3387/3931857). We employ all proteins (proteins that lack AF2 structures are removed), and split them based on 70% structure similarity (see [ProteinShake](https://github.com/BorgwardtLab/proteinshake/tree/main)), with the number of training, validation and test set shown below:
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-
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- - Train: 10414
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- - Valid: 1368
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- - Test: 1368
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-
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- # Data format
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-
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- We organize all data in LMDB format. The architecture of the databse is like:
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-
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- **length:** The number of samples
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-
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- **0:**
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-
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- - **name:** The UniProt ID of the protein
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-
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- - **seq:** The structure-aware sequence
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- - **plddt**: pLDDT values at all positions
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- - **label:** classification label of the sequence
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-
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- **1:**
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-
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  **···**
 
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+ ---
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+ license: mit
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+ ---
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+ # Description
5
+ Subcellular Localization prediction is a 10-class classification task to predict where a protein locates in the cell, where each input protein *x* is mapped to a label *y* ∈ {0, 1, ..., 9}.
6
+
7
+ The digital label means:
8
+
9
+ 0: Nucleus
10
+
11
+ 1: Cytoplasm
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+
13
+ 2: Extracellular
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+
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+ 3: Mitochondrion
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+
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+ 4: Cell.membrane
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+
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+ 5: Endoplasmic.reticulum
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+
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+ 6: Plastid
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+
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+ 7: Golgi.apparatus
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+
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+ 8: Lysosome/Vacuole
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+
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+ 9: Peroxisome
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+
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+ # Splits
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+
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+ **Structure type:** AF2
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+
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+ The dataset is from [**DeepLoc: prediction of protein subcellular localization using deep learning**](https://academic.oup.com/bioinformatics/article/33/21/3387/3931857). We employ all proteins (proteins that lack AF2 structures are removed), and split them based on 70% structure similarity (see [ProteinShake](https://github.com/BorgwardtLab/proteinshake/tree/main)), with the number of training, validation and test set shown below:
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+
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+ - Train: 10414
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+ - Valid: 1368
37
+ - Test: 1368
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+
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+ # Data format
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+
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+ We organize all data in LMDB format. The architecture of the databse is like:
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+
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+ **length:** The number of samples
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+
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+ **0:**
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+
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+ - **name:** The UniProt ID of the protein
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+
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+ - **seq:** The structure-aware sequence
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+ - **label:** classification label of the sequence
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+
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+ **1:**
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+
 
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  **···**