39 citations · 81 across the 19 of their papers we have counts for
20 papers
Projected Energy Matching for Generative 3D Priors
Daniel Barco, Michal Balcerak, Suprosanna Shit +4
Transport-based generative models, which learn a time-dependent vector field that moves noise to data, have become a dominant paradigm. However, these models typically do not expli…
Leptomeningeal Collateral Detection on DSA via Vessel-Graph Neural Networks
Junyong Cao, Hakim Baazaoui, Chinmay Prabhakar +5
Leptomeningeal collaterals (LMCs) are an important prognostic factor in acute ischemic stroke. Existing automated methods rely on CT angiography (CTA), but individual LMCs are ofte…
vesselFM-CT: Segmenting All Blood Vessels in CT Images for System-Level Cardiovascular Analysis
Bastian Wittmann, Chinmay Prabhakar, Suprosanna Shit +1
The vascular network in the human body is characterized by blood vessels exhibiting drastic structural variations in radius, length, topological properties, and branching patterns.…
Sparse Representation Learning for Vessels
Chinmay Prabhakar, Bastian Wittmann, Paul Büschl +3
Analyzing human vasculature and vessel-like, tubular structures, such as airways, is crucial for disease diagnosis and treatment. Current methods often rely on small sub-regions or…
Graph Energy Matching: Transport-Aligned Energy-Based Modeling for Graph Generation
Michal Balcerak, Suprosanna Shit, Chinmay Prabhakar +4
Generative modeling of discrete data, such as graphs, underpins many scientific and industrial applications, including molecular discovery and materials design. In these domains, p…
VesselTok: Tokenizing Vessel-like 3D Biomedical Graph Representations for Reconstruction and Generation
Chinmay Prabhakar, Bastian Wittmann, Tamaz Amiranashvili +6
Spatial graphs provide a lightweight and elegant representation of curvilinear anatomical structures such as blood vessels, lung airways, and neuronal networks. Accurately modeling…
VariViT: A Vision Transformer for Variable Image Sizes
Aswathi Varma, Suprosanna Shit, Chinmay Prabhakar +5
Vision Transformers (ViTs) have emerged as the state-of-the-art architecture in representation learning, leveraging self-attention mechanisms to excel in various tasks. ViTs split…
ProGiDiff: Prompt-Guided Diffusion-Based Medical Image Segmentation
Yuan Lin, Murong Xu, Marc Hölle +5
Widely adopted medical image segmentation methods, although efficient, are primarily deterministic and remain poorly amenable to natural language prompts. Thus, they lack the capab…
Circle of Willis Centerline Graphs: A Dataset and Baseline Algorithm
Fabio Musio, Norman Juchler, Kaiyuan Yang +4
The Circle of Willis (CoW) is a critical network of arteries in the brain, often implicated in cerebrovascular pathologies. Voxel-level segmentation is an important first step towa…
Semantically Consistent Discrete Diffusion for 3D Biological Graph Modeling
Chinmay Prabhakar, Suprosanna Shit, Tamaz Amiranashvili +2
3D spatial graphs play a crucial role in biological and clinical research by modeling anatomical networks such as blood vessels,neurons, and airways. However, generating 3D biologi…
3D Vessel Graph Generation Using Denoising Diffusion
Chinmay Prabhakar, Suprosanna Shit, Fabio Musio +5
Blood vessel networks, represented as 3D graphs, help predict disease biomarkers, simulate blood flow, and aid in synthetic image generation, relevant in both clinical and pre-clin…
QUBIQ: Uncertainty Quantification for Biomedical Image Segmentation Challenge
Hongwei Bran Li, Fernando Navarro, Ivan Ezhov +77
Uncertainty in medical image segmentation tasks, especially inter-rater variability, arising from differences in interpretations and annotations by various experts, presents a sign…
The TopCoW Challenge -- Topology-Aware Circle of Willis Segmentation for CT and MR Angiography
Kaiyuan Yang, Fabio Musio, Yihui Ma +112
The Circle of Willis (CoW) is an important network of arteries connecting major circulations of the brain. Its vascular architecture is believed to influence the risk, severity, an…
Self-pruning Graph Neural Network for Predicting Inflammatory Disease Activity in Multiple Sclerosis from Brain MR Images
Chinmay Prabhakar, Hongwei Bran Li, Johannes C. Paetzold +6
Multiple Sclerosis (MS) is a severe neurological disease characterized by inflammatory lesions in the central nervous system. Hence, predicting inflammatory disease activity is cru…
GenerateCT: Text-Conditional Generation of 3D Chest CT Volumes
Ibrahim Ethem Hamamci, Sezgin Er, Anjany Sekuboyina +13
GenerateCT, the first approach to generating 3D medical imaging conditioned on free-form medical text prompts, incorporates a text encoder and three key components: a novel causal…
Link Prediction for Flow-Driven Spatial Networks
Bastian Wittmann, Johannes C. Paetzold, Chinmay Prabhakar +2
Link prediction algorithms aim to infer the existence of connections (or links) between nodes in network-structured data and are typically applied to refine the connectivity among…
ViT-AE++: Improving Vision Transformer Autoencoder for Self-supervised Medical Image Representations
Chinmay Prabhakar, Hongwei Bran Li, Jiancheng Yang +3
Self-supervised learning has attracted increasing attention as it learns data-driven representation from data without annotations. Vision transformer-based autoencoder (ViT-AE) by…
A Domain-specific Perceptual Metric via Contrastive Self-supervised Representation: Applications on Natural and Medical Images
Hongwei Bran Li, Chinmay Prabhakar, Suprosanna Shit +7
Quantifying the perceptual similarity of two images is a long-standing problem in low-level computer vision. The natural image domain commonly relies on supervised learning, e.g.,…
Differentially Private Graph Classification with GNNs
Tamara T. Mueller, Johannes C. Paetzold, Chinmay Prabhakar +3
Graph Neural Networks (GNNs) have established themselves as the state-of-the-art models for many machine learning applications such as the analysis of social networks, protein inte…
Whole Brain Vessel Graphs: A Dataset and Benchmark for Graph Learning and Neuroscience (VesselGraph)
Johannes C. Paetzold, Julian McGinnis, Suprosanna Shit +9
Biological neural networks define the brain function and intelligence of humans and other mammals, and form ultra-large, spatial, structured graphs. Their neuronal organization is…