Fine-tuning Protein Language Models with Deep Mutational Scanning improves Variant Effect Prediction

no code implementations • 10 May 2024 • Aleix Lafita, Ferran Gonzalez, Mahmoud Hossam, Paul Smyth, Jacob Deasy, Ari Allyn-Feuer, Daniel Seaton, Stephen Young

Protein Language Models (PLMs) have emerged as performant and scalable tools for predicting the functional impact and clinical significance of protein-coding variants, but they still lag experimental accuracy.

Generalising sequence models for epigenome predictions with tissue and assay embeddings

no code implementations • 22 Aug 2023 • Jacob Deasy, Ron Schwessinger, Ferran Gonzalez, Stephen Young, Kim Branson

Sequence modelling approaches for epigenetic profile prediction have recently expanded in terms of sequence length, model size, and profile diversity.