SARS-CoV-2 RBD data along with ESM embeddings

This data is published along with the paper "Biophysical principles predict fitness of SARS-CoV-2 variants" and the code. 

Description:

rbd_df.csv : RBD sequences filtered from GISAID data, along with occurence time, up untill May 2023.

unique_mutant_sequence_emb_esm1v_650m.pkl : esm1v embeddings for unqiue RBDs in rbd_df.csv

df_Desai_15loci_complete.csv: esm1v embeddings for the Desai combinatoric dataset

If you use the code or predictions please consider citing:

@article{
doi:10.1073/pnas.2314518121,
author = {Dianzhuo Wang and Marian Huot and Vaibhav Mohanty and Eugene I. Shakhnovich },
title = {Biophysical principles predict fitness of SARS-CoV-2 variants},
journal = {Proceedings of the National Academy of Sciences},
volume = {121},
number = {23},
pages = {e2314518121},
year = {2024},
doi = {10.1073/pnas.2314518121},
URL = {https://www.pnas.org/doi/abs/10.1073/pnas.2314518121},
eprint = {https://www.pnas.org/doi/pdf/10.1073/pnas.2314518121},
}