Carlos Oliver Homepage

I am postdoctoral researcher at the Machine Learning and Computational Biology Lab at ETH Zurich, based in Basel, Switzerland. I was a member of the labs of Jérôme Waldispühl and William L. Hamilton during my PhD studies in Computer Science.

I build algorithms that help us understand network data (often biological).

Contact

• Academic: carlos.oliver@bsse.ethz.ch
• Business & Personal: carlos@ozeki.io
• GitHub: @cgoliver

Fields of study

• RNA and protein computational structural biology
• Structural bioinformatics
• Network motif mining
• Graph representation learning
• Drug discovery

Activities

• Google Scholar
• Consulting at Ozeki Inc.
• Pear Review
• Former Lead Scientist in Residence at Next AI
• Member of The Heterodox Academy

Reviewing (by topic)

• Bio(informatics): OUP Bioinformatics, ISMB, RECOMB, Nucleic Acids Research
• Machine Learning: Journal of Machine Learning Research, KDD, AAAI, IEEE Transactions on Emerging Topics in Computing
• Cheminformatics: Nature Communications Chemistry, Journal of Cheminformatics

Software

• rnaglib: analysis and deep learning on RNA 2.5D and 3D models (Homepage, Source Code)
• proteinshake: deep learning on protein 3D structures (Homepage, Source Code)

Updates

• Joint multidimensional scaling accepted at ICLR 2023! [ArXiV]
• McGill University School of Computer Science Colloquium talk on algorithms for molecular structure-function mapping. [slides]
• Preprint on graph neural networks for motif mining. [ArXiV]
• RNAglib, python package for ML on RNA 2.5D graphs is published in Bioinformatics Journal.
• Fuzzy network motif mining paper has been published at Bioinformatics.

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