I am a FCAI Research Fellow at Aalto University, a 5-year position funded by the Finnish Center for Artificial Intelligence. I work with groups

• Computational Systems Biology (Prof. Harri Lähdesmäki)
• Probabilistic Machine Learning (Prof. Samuel Kaski)

I am also a member of the ELLIS AI network, affiliated with ELLIS Institute Finland.

My interests span:

• Biology-Informed Machine Learning: blending flexible data-driven approaches and mechanistic models within Systems Biology

$\rightarrow$ For more information, you can have a look to this position piece: Position: Biology is the Challenge Physics-Informed ML needs to Evolve

• Bayesian Inference, Gaussian Processes and Bayesian Optimization.

I obtained my PhD in February 2022 from Ecole polytechnique, Inria and Institut Curie, under the supervision of François Fages and Annabelle Ballesta. The manuscript can be found here and the slides here. A detailed CV can be found here (Last updated: April 2025).

Besides, for a few years now, I have been cultivating a passion for indoor bouldering, with a mild success thus far 🫠

News

Two papers accepted to Neurips! See you in San Diego 🫨

• J. Martinelli. Position: Biology is the Challenge Physics-Informed ML needs to Evolve. (6% Acceptance rate)

• M. Sinaga, J. Martinelli, and S. Kaski. Robust and Computation-Aware Gaussian Processes.

A submission to ICLR:

• X. Zhang, C. Hassan, J. Martinelli, D. Huang, and S. Kaski. Task-Agnostic Amortized Multi-Objective Optimization.

$\rightarrow$ Towards universal black-box optimization engines! Some slides about this emerging topic can be found here

A review submitted:

• C. Métayer, A. Ballesta, and J. Martinelli. Data-driven Discovery of Digital Twins in Biomedical Research.