Published September 15, 2023
| Version 1.0.0
Dataset
Open
Data for DeepRank2 tutorials
Description
This data contains raw PDB files and other metadata that can be used to run DeepRank2 tutorials for processing and later training on protein-protein interfaces and protein structures containing single residue variants.
The PDB files in data_raw/ppi/ folder have been generated using PANDORA software.
The PDB files in data_raw/srv/ folder have been retrieved from Ramakrishnan et al.
Files
data_processed.zip
Files
(4.5 GB)
| Name | Size | Download all |
|---|---|---|
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md5:fe422ac4d0db45df13fd2540ab6dddd6
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4.5 GB | Preview Download |
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md5:acc350fef325ffaa62728e59b3a946be
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9.7 MB | Preview Download |
Additional details
References
- Marzella DF, Parizi FM, van Tilborg D, Renaud N, Sybrandi D, Buzatu R, Rademaker DT, 't Hoen PAC, Xue LC. PANDORA: A Fast, Anchor-Restrained Modelling Protocol for Peptide: MHC Complexes. Front Immunol. 2022 May 10;13:878762. doi: 10.3389/fimmu.2022.878762. PMID: 35619705; PMCID: PMC9127323.
- Ramakrishnan G, Baakman C, Heijl S, Vroling B, van Horck R, Hiraki J, Xue LC, Huynen MA. Understanding structure-guided variant effect predictions using 3D convolutional neural networks. Front Mol Biosci. 2023 Jul 5;10:1204157. doi: 10.3389/fmolb.2023.1204157. PMID: 37475887; PMCID: PMC10354367.