Carlos Oliver Homepage

I am a project leader at the Department of Machine Learning and Systems Biology at the Max Planck Institute of Biochemistry, based in Munich, Germany. Formerly postdoc at ETH Zurich and 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). More on my research here.

Contact

• Academic: oliver@biochem.mpg.de
• Business & Personal: carlos@ozeki.io
• GitHub: @cgoliver

Updates

• Preprint on RNA drug discovery bioRxiv
• Paper on Multimodal learning for antimicrobial bacteria resistance accepted at Bioinformatics! Preprint coming soon..
• ProteinShake accepted at NeurIPS 2023 Datasets and Benchmarks! Preprint coming soon..
• Open position PhD in my research group at the Max Planck Institute. [More info]
• 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.

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, AAAI, NeurIPS
• Data Mining: KDD, IEEE Transactions on Emerging Topics in Computing, SIAM International Conference on Data Mining
• 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)

PGP Public Key

-----BEGIN PGP PUBLIC KEY BLOCK-----
Version: OpenPGP.js v4.10.10
Comment: https://openpgpjs.org
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=6I3k
-----END PGP PUBLIC KEY BLOCK-----