User profiles for Fergus Imrie

Fergus Imrie

University of California, Los Angeles
Verified email at ucla.edu
Cited by 633

Protein family-specific models using deep neural networks and transfer learning improve virtual screening and highlight the need for more data

F Imrie, AR Bradley, M van der Schaar… - Journal of chemical …, 2018 - ACS Publications
Machine learning has shown enormous potential for computer-aided drug discovery. Here
we show how modern convolutional neural networks (CNNs) can be applied to structure-…

Deep generative models for 3D linker design

F Imrie, AR Bradley, M van der Schaar… - Journal of chemical …, 2020 - ACS Publications
Rational compound design remains a challenging problem for both computational methods
and medicinal chemists. Computational generative methods have begun to show promising …

[HTML][HTML] Deep generative design with 3D pharmacophoric constraints

F Imrie, TE Hadfield, AR Bradley, CM Deane - Chemical science, 2021 - pubs.rsc.org
Generative models have increasingly been proposed as a solution to the molecular design
problem. However, it has proved challenging to control the design process or incorporate …

[HTML][HTML] AutoPrognosis 2.0: Democratizing diagnostic and prognostic modeling in healthcare with automated machine learning

F Imrie, B Cebere, EF McKinney… - PLOS Digital …, 2023 - journals.plos.org
Diagnostic and prognostic models are increasingly important in medicine and inform many
clinical decisions. Recently, machine learning approaches have shown improvement over …

Explaining latent representations with a corpus of examples

J Crabbé, Z Qian, F Imrie… - Advances in Neural …, 2021 - proceedings.neurips.cc
Modern machine learning models are complicated. Most of them rely on convoluted latent
representations of their input to issue a prediction. To achieve greater transparency than a …

Multiple stakeholders drive diverse interpretability requirements for machine learning in healthcare

F Imrie, R Davis, M van der Schaar - Nature Machine Intelligence, 2023 - nature.com
Applications of machine learning are becoming increasingly common in medicine and
healthcare, enabling more accurate predictive models. However, this often comes at the cost of …

Continuous-time modeling of counterfactual outcomes using neural controlled differential equations

N Seedat, F Imrie, A Bellot, Z Qian… - arXiv preprint arXiv …, 2022 - arxiv.org
Estimating counterfactual outcomes over time has the potential to unlock personalized
healthcare by assisting decision-makers to answer ''what-iF'' questions. Existing causal inference …

Generating property-matched decoy molecules using deep learning

F Imrie, AR Bradley, CM Deane - Bioinformatics, 2021 - academic.oup.com
Motivation An essential step in the development of virtual screening methods is the use of
established sets of actives and decoys for benchmarking and training. However, the decoy …

Testing the limits of SMILES-based de novo molecular generation with curriculum and deep reinforcement learning

M Mokaya, F Imrie, WP van Hoorn, A Kalisz… - Nature Machine …, 2023 - nature.com
Deep reinforcement learning methods have been shown to be potentially powerful tools for
de novo design. Recurrent-neural-network-based techniques are the most widely used …

Can You Rely on Your Model Evaluation? Improving Model Evaluation with Synthetic Test Data

B van Breugel, N Seedat, F Imrie… - Advances in Neural …, 2024 - proceedings.neurips.cc
Evaluating the performance of machine learning models on diverse and underrepresented
subgroups is essential for ensuring fairness and reliability in real-world applications. However…