U. Deva Priyakumar

Likith Reddy, Vivek Talwar, Shanmukh Alle et al.

Early detection of cardiovascular diseases is crucial for effective treatment and an electrocardiogram (ECG) is pivotal for diagnosis. The accuracy of Deep Learning based methods for ECG signal classification has progressed in recent years to reach cardiologist-level performance. In clinical settings, a cardiologist makes a diagnosis based on the standard 12-channel ECG recording. Automatic analysis of ECG recordings from a multiple-channel perspective has not been given enough attention, so it is essential to analyze an ECG recording from a multiple-channel perspective. We propose a model that leverages the multiple-channel information available in the standard 12-channel ECG recordings and learns patterns at the beat, rhythm, and channel level. The experimental results show that our model achieved a macro-averaged ROC-AUC score of 0.9216, mean accuracy of 88.85\%, and a maximum F1 score of 0.8057 on the PTB-XL dataset. The attention visualization results from the interpretable model are compared against the cardiologist's guidelines to validate the correctness and usability.

Abhiroop Talasila, Maitreya Maity, U. Deva Priyakumar

Unsupervised pre-training has emerged as a transformative paradigm, displaying remarkable advancements in various domains. However, the susceptibility to domain shift, where pre-training data distribution differs from fine-tuning, poses a significant obstacle. To address this, we augment the Swin Transformer to learn from different medical imaging modalities, enhancing downstream performance. Our model, dubbed SwinFUSE (Swin Multi-Modal Fusion for UnSupervised Enhancement), offers three key advantages: (i) it learns from both Computed Tomography (CT) and Magnetic Resonance Images (MRI) during pre-training, resulting in complementary feature representations; (ii) a domain-invariance module (DIM) that effectively highlights salient input regions, enhancing adaptability; (iii) exhibits remarkable generalizability, surpassing the confines of tasks it was initially pre-trained on. Our experiments on two publicly available 3D segmentation datasets show a modest 1-2% performance trade-off compared to single-modality models, yet significant out-performance of up to 27% on out-of-distribution modality. This substantial improvement underscores our proposed approach's practical relevance and real-world applicability. Code is available at: https://github.com/devalab/SwinFUSE

Yash Khare, Viraj Bagal, Minesh Mathew et al.

Images in the medical domain are fundamentally different from the general domain images. Consequently, it is infeasible to directly employ general domain Visual Question Answering (VQA) models for the medical domain. Additionally, medical images annotation is a costly and time-consuming process. To overcome these limitations, we propose a solution inspired by self-supervised pretraining of Transformer-style architectures for NLP, Vision and Language tasks. Our method involves learning richer medical image and text semantic representations using Masked Language Modeling (MLM) with image features as the pretext task on a large medical image+caption dataset. The proposed solution achieves new state-of-the-art performance on two VQA datasets for radiology images -- VQA-Med 2019 and VQA-RAD, outperforming even the ensemble models of previous best solutions. Moreover, our solution provides attention maps which help in model interpretability. The code is available at https://github.com/VirajBagal/MMBERT

Rishal Aggarwal, Akash Gupta, U Deva Priyakumar

Protein-ligand complex structures have been utilised to design benchmark machine learning methods that perform important tasks related to drug design such as receptor binding site detection, small molecule docking and binding affinity prediction. However, these methods are usually trained on only ligand bound (or holo) conformations of the protein and therefore are not guaranteed to perform well when the protein structure is in its native unbound conformation (or apo), which is usually the conformation available for a newly identified receptor. A primary reason for this is that the local structure of the binding site usually changes upon ligand binding. To facilitate solutions for this problem, we propose a dataset called APObind that aims to provide apo conformations of proteins present in the PDBbind dataset, a popular dataset used in drug design. Furthermore, we explore the performance of methods specific to three use cases on this dataset, through which, the importance of validating them on the APObind dataset is demonstrated.