Add link to new paper and code repository
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by
nielsr
HF Staff
- opened
README.md
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---
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tags:
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- protein-protein interaction
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- binding affinity
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- bioinformatics
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- multi-chain proteins
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- ppb affinity
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license: cc-by-nc-sa-4.0
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pipeline_tag: regression
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task_categories:
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- text-classification
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---
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## Dataset Description
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This version of the dataset was prepared for the study: "*[Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction](https://arxiv.org/pdf/2505.20036)*."
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The primary enhancements in this repository include:
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* Various levels of data filtration and processing.
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* The addition of pre-extracted "Ligand Sequences" and "Receptor Sequences" columns, making the dataset ready for use with sequence-based models without requiring PDB file parsing. For complexes with multiple ligand or receptor chains, the sequences are comma-separated.
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* **`Ligand Sequences`**: `string` - Comma-separated amino acid sequences of the ligand chain(s).
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* **`Receptor Sequences`**: `string` - Comma-separated amino acid sequences of the receptor chain(s).
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**Note on Sequences**: When multiple ligand or receptor chains are present in a complex, their respective amino acid sequences are concatenated with a comma (`,`) as a separator in the "Ligand Sequences" and "Receptor Sequences" fields.
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---
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---
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license: cc-by-nc-sa-4.0
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task_categories:
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- regression
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tags:
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- protein-protein interaction
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- binding affinity
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- bioinformatics
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- multi-chain proteins
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- ppb affinity
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pipeline_tag: regression
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---
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## Dataset Description
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This version of the dataset was prepared for the study: "*[Beyond Simple Concatenation: Fairly Assessing PLM Architectures for Multi-Chain Protein-Protein Interactions Prediction](https://arxiv.org/pdf/2505.20036)*."
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Code: https://github.com/Proteinea/ppiseq
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The primary enhancements in this repository include:
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* Various levels of data filtration and processing.
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* The addition of pre-extracted "Ligand Sequences" and "Receptor Sequences" columns, making the dataset ready for use with sequence-based models without requiring PDB file parsing. For complexes with multiple ligand or receptor chains, the sequences are comma-separated.
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* **`Ligand Sequences`**: `string` - Comma-separated amino acid sequences of the ligand chain(s).
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* **`Receptor Sequences`**: `string` - Comma-separated amino acid sequences of the receptor chain(s).
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**Note on Sequences**: When multiple ligand or receptor chains are present in a complex, their respective amino acid sequences are concatenated with a comma (`,`) as a separator in the "Ligand Sequences" and "Receptor Sequences" fields.
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