Gonzalo Benegas

Postdoc @ UC Berkeley

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Hello! I’m a postdoc at UC Berkeley, working with Yun S. Song. My main interests are applications of machine learning and artificial intelligence in genomics.

I received my PhD in Computational Biology at UC Berkeley and my Licentiate degree in Computer Science at the University of Buenos Aires. Previously, I worked as a software engineer at Urbansim and Autodesk.

selected publications

2024

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    Genomic Language Models: Opportunities and Challenges
    Gonzalo Benegas*, Chengzhong Ye*, Carlos Albors*, Jianan Canal Li*, and Yun S Song
    arXiv preprint arXiv:2407.11435, 2024

2023

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    GPN-MSA: an alignment-based DNA language model for genome-wide variant effect prediction
    Gonzalo Benegas, Carlos Albors, Alan J Aw, Chengzhong Ye, and Yun S Song
    Nature Biotechnology, in press, 2023
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    DNA language models are powerful predictors of genome-wide variant effects
    Gonzalo Benegas, Sanjit Singh Batra, and Yun S. Song
    Proceedings of the National Academy of Sciences, 2023

2022

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    Robust and annotation-free analysis of alternative splicing across diverse cell types in mice
    Gonzalo Benegas, Jonathan Fischer, and Yun S Song
    eLife, Mar 2022