Incorporating Prior Knowledge in Deep Learning Models via Pathway Activity Autoencoders

1 code implementation • 9 Jun 2023 • Pedro Henrique da Costa Avelar, Min Wu, Sophia Tsoka

Through comprehensive comparisons among various learning models, we show that, despite having access to a smaller set of features, our PAAE and PAVAE models achieve better out-of-set reconstruction results compared to common methodologies.

Multi-Omic Data Integration and Feature Selection for Survival-based Patient Stratification via Supervised Concrete Autoencoders

1 code implementation • 21 Jun 2022 • Pedro Henrique da Costa Avelar, Roman Laddach, Sophia Karagiannis, Min Wu, Sophia Tsoka

We also perform a feature selection stability analysis on our models and notice that there is a power-law relationship with features which are commonly associated with survival.

Data Integration feature selection