Soojin Lee

Anushree Bannadabhavi, Soojin Lee, Wenlong Deng et al.

Autism spectrum disorder(ASD) is a lifelong neurodevelopmental condition that affects social communication and behavior. Investigating functional magnetic resonance imaging (fMRI)-based brain functional connectome can aid in the understanding and diagnosis of ASD, leading to more effective treatments. The brain is modeled as a network of brain Regions of Interest (ROIs), and ROIs form communities and knowledge of these communities is crucial for ASD diagnosis. On the one hand, Transformer-based models have proven to be highly effective across several tasks, including fMRI connectome analysis to learn useful representations of ROIs. On the other hand, existing transformer-based models treat all ROIs equally and overlook the impact of community-specific associations when learning node embeddings. To fill this gap, we propose a novel method, Com-BrainTF, a hierarchical local-global transformer architecture that learns intra and inter-community aware node embeddings for ASD prediction task. Furthermore, we avoid over-parameterization by sharing the local transformer parameters for different communities but optimize unique learnable prompt tokens for each community. Our model outperforms state-of-the-art (SOTA) architecture on ABIDE dataset and has high interpretability, evident from the attention module. Our code is available at https://github.com/ubc-tea/Com-BrainTF.

Soojin Lee, Ingu Sean Lee, Samuel Kim

Chronic Obstructive Pulmonary Disease (COPD) is an irreversible airway obstruction with a high societal burden. Although smoking is known to be the biggest risk factor, additional components need to be considered. In this study, we aim to identify COPD risk factors by applying machine learning models that integrate sociodemographic, clinical, and genetic data to predict COPD development.

Roozbeh Bazargani, Saqib Abdullah Basar, Daniel Daly-Grafstein et al.

The human spine is a complex structure composed of 33 vertebrae. It holds the body and is important for leading a healthy life. The spine is vulnerable to age-related degenerations that can be identified through magnetic resonance imaging (MRI). In this paper we propose a novel computer-vison-based deep learning method to estimate spine age using images from over 18,000 MRI series. Data are restricted to subjects with only age-related spine degeneration. Eligibility criteria are created by identifying common age-based clusters of degenerative spine conditions using uniform manifold approximation and projection (UMAP) and hierarchical density-based spatial clustering of applications with noise (HDBSCAN). Model selection is determined using a detailed ablation study on data size, loss, and the effect of different spine regions. We evaluate the clinical utility of our model by calculating the difference between actual spine age and model-predicted age, the spine age gap (SAG), and examining the association between these differences and spine degenerative conditions and lifestyle factors. We find that SAG is associated with conditions including disc bulges, disc osteophytes, spinal stenosis, and fractures, as well as lifestyle factors like smoking and physically demanding work, and thus may be a useful biomarker for measuring overall spine health.