Python analysis template

Fri, 05 Jul 2024 00:00:00 +0000

PhD project

Wed, 01 Jun 2022 00:00:00 +0000

Abstract

Atopic Dermatitis (AD, eczema) is a common inflammatory skin disease, characterised by dry and itchy skin. AD cannot be cured, but its long-term outcomes can be managed with treatments. Given the heterogeneity in patients’ responses to treatment, designing personalised rather than “one-size-fits-all” treatment strategies is of high clinical relevance. In this thesis, we aim to pave the way towards a data-driven personalised management of AD severity, whereby severity data would be collected automatically from photographs without the need for patients to visit a clinic, be used to predict the evolution of AD severity, and generate personalised treatment recommendations.

First, we developed EczemaNet¹, a computer vision pipeline using convolution neural networks that detects areas of AD from photographs and then makes probabilistic assessments of AD severity. EczemaNet was internally validated with a medium-size dataset of images collected in a published clinical trial and demonstrated fair performance.

Then, we developed models predicting the daily to weekly evolution of AD severity². We highlighted the challenges of extracting signals from noisy severity data, with small and practically not significant effects of environmental factors³ and biomarkers⁴ on prediction. We showed the importance of using high-quality measurements of validated and objective (vs subjective) severity scores. We also stressed the importance of modelling individual severity items rather than aggregate scores, and introduced EczemaPred⁵, a principled approach to predict AD severity using Bayesian state-space models. Our models are flexible by design, interpretable and can quantify uncertainty in measurements, parameters and predictions. The models demonstrated good performance to predict the Patient-Oriented SCOring AD (PO-SCORAD).

Finally, we generated personalised treatment recommendations using Bayesian decision analysis. We observed that treatment effects and recommendations could be confounded by the clinical phenotype of patients. We also pretrained our model using historical data and combined clinical and self-assessments.

In conclusion, we have demonstrated the feasibility and the challenges of a data-driven personalised management of AD severity.

Reproducible R Workflow

Tue, 17 May 2022 00:00:00 +0000

EczemaPred

Mon, 11 Oct 2021 00:00:00 +0000

Streetmaps

Wed, 08 Jan 2020 00:00:00 +0000

Football Prediction

Tue, 26 Nov 2019 00:00:00 +0000

LaTeX Templates

Sun, 10 Nov 2019 00:00:00 +0000

HuraultMisc

Fri, 28 Jun 2019 00:00:00 +0000

Calcium imaging

Wed, 01 May 2019 00:00:00 +0000

Lokta-Volterra competition model in Stan

Fri, 12 Apr 2019 00:00:00 +0000

Regularisation

Thu, 24 Jan 2019 00:00:00 +0000

Projects | Guillem Hurault