/protein-visualizer

Visualizing the function of biological proteins through deep learning. MIT UROP 2024 project

Primary LanguagePythonMIT LicenseMIT

protein-visualizer

A protein visualization program that uses deep learning to map 3D structure to amino acid function. See website for installation and usage details.

Attribution

  • Bepler, T., Berger, B. Learning the protein language: evolution, structure, and function. Cell Systems 12, 6 (2021). https://doi.org/10.1016/j.cels.2021.05.017
  • Bepler, T., Berger, B. Learning protein sequence embeddings using information from structure. International Conference on Learning Representations (2019). https://openreview.net/pdf?id=SygLehCqtm
  • Gligorijevic, Vladimir and Renfrew, P. Douglas and Kosciolek, Tomasz and Leman, Julia Koehler and Cho, Kyunghyun and Vatanen, Tommi and Berenberg, Daniel and Taylor, Bryn and Fisk, Ian M. and Xavier, Ramnik J. and Knight, Rob and Bonneau, Richard. Structure-based function prediction using graph convolutional networks. Cold Spring Harbor Laboratory (2019). https://doi.org/10.1101/786236.