Author

C. Ford

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Open access Aug 2026

Hō‘ike: A Joint-Embedding Predictive Architecture for Transcriptome Data Generation with Diffusion Models

Hoike is a framework that combines a crossdomain Joint-Embedding Predictive Architecture (JEPA) with a latent diffusion model to generate condition-specific bulk transcriptomes from a normal reference context and its reproducible analysis workflow.

Phillip Souza, C. Ford · bioRxiv · 0 citations

Review Open access Aug 2026

Kūkulu: Diffusion-Based Reconstruction of Antibody CDR Loops using a Structure-Aware Joint Embedding Predictive Architecture

Kukulu, a structure-aware Joint Embedding Predictive Architecture combined with conditional diffusion for CDR loop reconstruction in antibody-antigen complexes is presented, a methods-focused overview of the model’s implementation details and an evaluation protocol based on structure quality and docking-oriented scorin...

Seth Rabinowitz, Prbhuv Nigam, Nicholas Santolla et al. · bioRxiv · 1 citation