3 papers
cs.LG2025
Large Language Models for Zero-shot Inference of Causal Structures in Biology
Izzy Newsham, Luka KovaÄeviÄ, Richard Moulange +2
Genes, proteins and other biological entities influence one another via causal molecular networks. Causal relationships in such networks are mediated by complex and diverse mechani…
cs.LG2025
No Foundations without Foundations -- Why semi-mechanistic models are essential for regulatory biology
Luka KovaÄeviÄ, Thomas Gaudelet, James Opzoomer +5
Despite substantial efforts, deep learning has not yet delivered a transformative impact on elucidating regulatory biology, particularly in the realm of predicting gene expression…
stat.ML2024
Simulation-based Benchmarking for Causal Structure Learning in Gene Perturbation Experiments
Luka KovaÄeviÄ, Izzy Newsham, Sach Mukherjee +1
Causal structure learning (CSL) refers to the task of learning causal relationships from data. Advances in CSL now allow learning of causal graphs in diverse application domains, w…