#Computational Biology

4 posts tagged with "Computational Biology"

When 62 Days of Compute Becomes 3: Diffusion Models as Fast Surrogates for Agent-Based Biological Simulations

2026-01-03T12:00:00Z•14 min read

#diffusion models #agent-based modeling #computational biology #cellular potts #surrogates #machine learning

How generative diffusion models can serve as fast surrogates for expensive biological simulations, achieving 22x speedup while preserving the stochastic diversity that makes these models scientifically useful.

Biological World Models: The Projects You're Not Building (But Should Be)

2025-12-18T14:00:00Z•16 min read

#world models #computational biology #machine learning #single cell #neural ode #flow matching

Why computational biologists should stop building embeddings and start building simulators, with three tractable project ideas you can implement today using flow matching, Neural ODEs, and cell fate trajectory modeling.

Biology's Secret Weapon: Physics-Based Benchmarks for Training RL Agents

2025-12-03•16 min read

#reinforcement learning #biological benchmarks #protein design #rna design #computational biology #machine learning #alphafold #drug discovery

Why biological systems offer the ideal training ground for reinforcement learning: automated verification through physics, not human judgment. From protein design with AlphaFold to RNA folding with ViennaRNA, biology provides the verifiable inverse problems that RL needs at scale.

The Dark Matter of Biology: What Machine Learning Reveals About the Invisible Proteome

2025-12-02•20 min read

#machine learning #computational biology #protein structure #rna #alphafold #intrinsic disorder

Machine learning is illuminating biology's hidden half: intrinsically disordered proteins and RNA structures that traditional methods could never capture. But can we trust what we're seeing?