Vaanathi Sundaresan

Vaanathi Sundaresan, Julia F. Lehman, Sean Fitzgibbon et al.

Anatomic tracing data provides detailed information on brain circuitry essential for addressing some of the common errors in diffusion MRI tractography. However, automated detection of fiber bundles on tracing data is challenging due to sectioning distortions, presence of noise and artifacts and intensity/contrast variations. In this work, we propose a deep learning method with a self-supervised loss function that takes anatomy-based constraints into account for accurate segmentation of fiber bundles on the tracer sections from macaque brains. Also, given the limited availability of manual labels, we use a semi-supervised training technique for efficiently using unlabeled data to improve the performance, and location constraints for further reduction of false positives. Evaluation of our method on unseen sections from a different macaque yields promising results with a true positive rate of ~0.90. The code for our method is available at https://github.com/v-sundaresan/fiberbundle_seg_tracing.

Harsh Kumar, Tarun Kumar Garg, Vaanathi Sundaresan

Federated learning (FL) is severely hindered by statistical heterogeneity due to variations in scanners, acquisition protocols, and patient populations. Such non-IID data induces client drift during local optimization, leading to unstable convergence and suboptimal global models when parameter-based aggregation is applied. We propose a prototype-based, influence-aware federated learning framework (FedProIn) that uses multiple learnable class prototypes to capture shared semantic structures across heterogeneous clients. We introduce feature divergence loss and prototype contrastive loss to mitigate client drift by decomposing it into feature drift and prototype drift. In addition, we propose a normalized influence aggregation strategy that adaptively weights client prototypes according to their contribution to the global representation, reducing the impact of biased or low-quality updates. Experimental results on two publicly available medical datasets, HAM10000 and Matek-19, demonstrate that FedProIn achieves accuracies of (83.5% IID, 81.1% non-IID) on HAM10000 and (96.2% IID, 95.8% non-IID) on Matek-19, respectively, outperforming existing baselines in both conditions. Our code is available at https://github.com/harsh-kmr/FedProIn.

Shreyas H Ramananda, Vaanathi Sundaresan

In clinical settings, intracranial hemorrhages (ICH) are routinely diagnosed using non-contrast CT (NCCT) for severity assessment. Accurate automated segmentation of ICH lesions is the initial and essential step, immensely useful for such assessment. However, compared to other structural imaging modalities such as MRI, in NCCT images ICH appears with very low contrast and poor SNR. Over recent years, deep learning (DL)-based methods have shown great potential, however, training them requires a huge amount of manually annotated lesion-level labels, with sufficient diversity to capture the characteristics of ICH. In this work, we propose a novel weakly supervised DL method for ICH segmentation on NCCT scans, using image-level binary classification labels, which are less time-consuming and labor-efficient when compared to the manual labeling of individual ICH lesions. Our method initially determines the approximate location of ICH using class activation maps from a classification network, which is trained to learn dependencies across contiguous slices. We further refine the ICH segmentation using pseudo-ICH masks obtained in an unsupervised manner. The method is flexible and uses a computationally light architecture during testing. On evaluating our method on the validation data of the MICCAI 2022 INSTANCE challenge, our method achieves a Dice value of 0.55, comparable with those of existing weakly supervised method (Dice value of 0.47), despite training on a much smaller training data.

Ghanshyam Dhamat, Vaanathi Sundaresan

The identification and segmentation of moderate-severe traumatic brain injury (TBI) lesions pose a significant challenge in neuroimaging. This difficulty arises from the extreme heterogeneity of these lesions, which vary in size, number, and laterality, thereby complicating downstream image processing tasks such as image registration and brain parcellation, reducing the analytical accuracy. Thus, developing methods for highly accurate segmentation of TBI lesions is essential for reliable neuroimaging analysis. This study aims to develop an effective automated segmentation pipeline to automatically detect and segment TBI lesions in T1-weighted MRI scans. We evaluate multiple approaches to achieve accurate segmentation of the TBI lesions. The core of our pipeline leverages various architectures within the nnUNet framework for initial segmentation, complemented by post-processing strategies to enhance evaluation metrics. Our final submission to the challenge achieved an accuracy of 0.8451, Dice score values of 0.4711 and 0.8514 for images with and without visible lesions, respectively, with an overall Dice score of 0.5973, ranking among the top-6 methods in the AIMS-TBI 2025 challenge. The Python implementation of our pipeline is publicly available.

Nicola K Dinsdale, Emma Bluemke, Vaanathi Sundaresan et al.

The combination of deep learning image analysis methods and large-scale imaging datasets offers many opportunities to imaging neuroscience and epidemiology. However, despite the success of deep learning when applied to many neuroimaging tasks, there remain barriers to the clinical translation of large-scale datasets and processing tools. Here, we explore the main challenges and the approaches that have been explored to overcome them. We focus on issues relating to data availability, interpretability, evaluation and logistical challenges, and discuss the challenges we believe are still to be overcome to enable the full success of big data deep learning approaches to be experienced outside of the research field.