Portrait of Shuang Ni

Shuang Ni

PhD - Université de Montréal
Supervisor
Guy Wolf
Research Topics
Computational Biology
Dimensionality Reduction Methods
Medical Machine Learning
Website
GitHub

Publications

Random Forest Autoencoders for Guided Representation Learning
Adrien Aumon
Shuang Ni
Myriam Lizotte
Guy Wolf
Kevin R. Moon
Jake S. Rhodes
Decades of research have produced robust methods for unsupervised data visualization, yet supervised visualization…
2025-02-18
ArXiv (preprint)
arxiv.org
arxiv.org
Random Forest Autoencoders for Guided Representation Learning
Adrien Aumon
Shuang Ni
Myriam Lizotte
Guy Wolf
Kevin R. Moon
Jake S. Rhodes
Decades of research have produced robust methods for unsupervised data visualization, yet supervised visualization…
2025-02-18
ArXiv (preprint)
doi.org
arxiv.org
Enhancing Supervised Visualization through Autoencoder and Random Forest Proximities for Out-of-Sample Extension
Shuang Ni
Adrien Aumon
Guy Wolf
Kevin R. Moon
Jake S. Rhodes
The value of supervised dimensionality reduction lies in its ability to uncover meaningful connections between data features and labels. Com… (see more)mon dimensionality reduction methods embed a set of fixed, latent points, but are not capable of generalizing to an unseen test set. In this paper, we provide an out-of-sample extension method for the random forest-based supervised dimensionality reduction method, RF-PHATE, combining information learned from the random forest model with the function-learning capabilities of autoencoders. Through quantitative assessment of various autoencoder architectures, we identify that networks that reconstruct random forest proximities are more robust for the embedding extension problem. Furthermore, by leveraging proximity-based prototypes, we achieve a 40% reduction in training time without compromising extension quality. Our method does not require label information for out-of-sample points, thus serving as a semi-supervised method, and can achieve consistent quality using only 10% of the training data.
2024-01-01
MLSP (published)
doi.org
arxiv.org