DeepRank2: Mining 3D Protein Structures with Geometric Deep Learning

Python Jupyter Notebook Submitted 22 September 2023 • Published 27 February 2024
Software repository Paper review Download paper Software archive
Review

Editor: @richardjgowers (all papers)
Reviewers: @jnwei (all reviews), @abhishektiwari (all reviews)

Authors

Giulia Crocioni (0000-0002-0823-0121), Dani L. Bodor (0000-0003-2109-2349), Coos Baakman (0000-0003-4317-1566), Farzaneh M. Parizi (0000-0003-4230-7492), Daniel-T. Rademaker (0000-0003-1959-1317), Gayatri Ramakrishnan (0000-0001-8203-2783), Sven A. van der Burg (0000-0003-1250-6968), Dario F. Marzella (0000-0002-0043-3055), João M.c. Teixeira (0000-0002-9113-0622), Li C. Xue (0000-0002-2613-538X)

Citation

Crocioni et al., (2024). DeepRank2: Mining 3D Protein Structures with Geometric Deep Learning. Journal of Open Source Software, 9(94), 5983, https://doi.org/10.21105/joss.05983

@article{Crocioni2024, doi = {10.21105/joss.05983}, url = {https://doi.org/10.21105/joss.05983}, year = {2024}, publisher = {The Open Journal}, volume = {9}, number = {94}, pages = {5983}, author = {Giulia Crocioni and Dani L. Bodor and Coos Baakman and Farzaneh M. Parizi and Daniel-T. Rademaker and Gayatri Ramakrishnan and Sven A. van der Burg and Dario F. Marzella and João M.c. Teixeira and Li C. Xue}, title = {DeepRank2: Mining 3D Protein Structures with Geometric Deep Learning}, journal = {Journal of Open Source Software} }
Copy citation string · Copy BibTeX  
Tags

PyTorch structural biology geometric deep learning 3D protein structures protein-protein interfaces single-residue variants graph neural networks convolutional neural networks DeepRank

Altmetrics
Markdown badge

 

License

Authors of JOSS papers retain copyright.

This work is licensed under a Creative Commons Attribution 4.0 International License.

Creative Commons License

Journal of Open Source Software is an affiliate of the Open Source Inititative.

Journal of Open Source Software is part of Open Journals, which is a NumFOCUS-sponsored project.

Table of Contents
Public user content licensed CC BY 4.0 unless otherwise specified.
ISSN 2475-9066