Code for implementing the Aggregation-Network diffusion model (AND), as described in the paper: "Combined Model of Aggregation And Network Diffusion Recapitulates Alzheimer’s Regional Tau-PET " by Ashish Raj*, Veronica Tora, Xiao Gao, Hanna Cho, Jae Yong Choi, Young Hoon Ryu, Chul Hyoung Lyoo, Bruno Franchi. *Department of Radiology and Biomedic…
👐 TADOSS: TAndem DOmain Swap Stability predictor
Aggregates Characterization Toolkit for fluorescence microscopy image analysis.
Polar-Multipole Amyloid Scoring — closed-form peptide/protein amyloid predictor with Chou-Fasman/Hovmöller structural sidecar + two-sequence co-aggregation scorer. Calibrated on WaltzDB 2.0 / iAmyP / CPAD 2.0.
Dean, Dexter N., et al. "Strain-specific Fibril Propagation by an Aβ Dodecamer." Scientific reports 7 (2017): 40787.
ODE simulation of Abeta on-off pathway switching
A phase-resolved geometric deep learning framework for disease-associated protein aggregation using Siamese EGNNs, FiLM phase tokens, structural graphs, ESM2 embeddings, and kinetic supervision.
Physics-based models allow us to connect microscopic mechanisms (nucleation, growth, fragmentation) with macroscopic observables (mass, number, distributions). However, different mechanisms can produce similar macroscopic behavior, so reliable conclusions require rich datasets (e.g. time evolution and size distributions).
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