---
title: "Foundational Models of Interaction Analysis"
source: https://www.jemoka.com/posts/kbhfundational_models_of_interaction_analysis/
---

Problem: end-to-end analysis of biological interactions at all timescales is hard; womp womp. No relationship explicitly between sequence, crystallography, md, etc. Also, some of them have time, some of them are frozen, etc.
Solution: use ML to glue multiple scales&rsquo; analysis together, using ML to
story 1: proteins can be encoded as hierarchies protein functional behavior secondary structure/primary structure amino acids sequences! Slicing through the embedding space of GenSLMs can be used to identify these larger scale things from just the sequence by looking at the &ldquo;general area&rdquo; it exists in the latest space.
story 2: tetrahedron tessellations and finite-element methods to analyze dynamics behavior Resolving cyro-EM dynamics to be able to capture binding behavior
ANCA-AE
applications training GenSLMs can help identify covid variantts
