Evaluating Zero-Shot Scoring for In Vitro Antibody Binding Prediction with Experimental Validation

no code implementations • 7 Dec 2023 • Divya Nori, Simon V. Mathis, Amir Shanehsazzadeh

The success of therapeutic antibodies relies on their ability to selectively bind antigens.

Is Transfer Learning Necessary for Protein Landscape Prediction?

no code implementations • 31 Oct 2020 • Amir Shanehsazzadeh, David Belanger, David Dohan

In this paper, we show that CNN models trained solely using supervised learning both compete with and sometimes outperform the best models from TAPE that leverage expensive pretraining on large protein datasets.

Benchmarking Representation Learning +1

Fixed-Length Protein Embeddings using Contextual Lenses

1 code implementation • 15 Oct 2020 • Amir Shanehsazzadeh, David Belanger, David Dohan

We consider transformer (BERT) protein language models that are pretrained on the TrEMBL data set and learn fixed-length embeddings on top of them with contextual lenses.