Aubin Ramon

dblp:367/5768 · DBLP profile ↗
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1ranked-venue papers
0as first author
1since 2021 · last 2024
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Artificial intelligence and machine learning · 1 · 1 since 2021

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Artificial intelligence
1 paper
Representation and self-supervised learning · 100%
Interdisciplinary, comprehensive, and emerging computing
1 paper
Bioinformatics and computational biology · 100%

Topics — the 3 heaviest of 3, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Machine learning › Representation and self-supervised learning
contrastive learning
0.812024
Improving Antibody Humanness Prediction using Patent Data · ICML 2024
Machine learning › Representation and self-supervised learning › contrastive learning
weakly-supervised contrastive learning
0.812024
Improving Antibody Humanness Prediction using Patent Data · ICML 2024
Bioinformatics and computational biology › protein design
antibody design
0.812024
Improving Antibody Humanness Prediction using Patent Data · ICML 2024

Methods — techniques the papers use, named apart from their topics

multi-stage training · 1.5multi-loss training · 1.5cross-entropy loss · 1.5
YearPublicationVenuePosition
2024 Improving Antibody Humanness Prediction using Patent Data
abstract
We investigate the potential of patent data for improving the antibody humanness prediction using a multi-stage, multi-loss training process. Humanness serves as a proxy for the immunogenic response to antibody therapeutics, one of the major causes of attrition in drug discovery and a challenging obstacle for their use in clinical settings. We pose the initial learning stage as a weakly-supervised contrastive-learning problem, where each antibody sequence is associated with possibly multiple identifiers of function and the objective is to learn an encoder that groups them according to their patented properties. We then freeze a part of the contrastive encoder and continue training it on the patent data using the cross-entropy loss to predict the humanness score of a given antibody sequence. We illustrate the utility of the patent data and our approach by performing inference on three different immunogenicity datasets, unseen during training. Our empirical results demonstrate that the learned model consistently outperforms the alternative baselines and establishes new state-of-the-art on five out of six inference tasks, irrespective of the used metric.
Talip Ucar, Aubin Ramon, Dino Oglic, Rebecca Croasdale-Wood, Tom Diethe, Pietro Sormanni
ICML2