# Neuroverse3D: Developing In-Context Learning Universal Model for Neuroimaging in 3D

arXiv: https://arxiv.org/abs/2503.02410 · HTML: https://mlsanity.com/paper/2503.02410/

## Key facts

- Cited by 1 papers in the map (data through 14 Oct 2026).
- Builds on 32 of its 58 references that are in the map.
- First posted on arXiv 4 Mar 2025.

## Builds on (most cited first, 30 of 32)

- [Deep Residual Learning for Image Recognition](https://mlsanity.com/paper/1512.03385/) (2015)
- [Language Models are Few-Shot Learners](https://mlsanity.com/paper/2005.14165/) (2020)
- [Segment Anything](https://mlsanity.com/paper/2304.02643/) (2023)
- [Gaussian Error Linear Units (GELUs)](https://mlsanity.com/paper/1606.08415/) (2016)
- [3D U-Net: Learning Dense Volumetric Segmentation from Sparse Annotation](https://mlsanity.com/paper/1606.06650/) (2016)
- [Swin UNETR: Swin Transformers for Semantic Segmentation of Brain Tumors in MRI Images](https://mlsanity.com/paper/2201.01266/) (2022)
- [Images Speak in Images: A Generalist Painter for In-Context Visual Learning](https://mlsanity.com/paper/2212.02499/) (2022)
- [SynthSeg: Segmentation of brain MRI scans of any contrast and resolution without retraining](https://mlsanity.com/paper/2107.09559/) (2021)
- [CLIP-Driven Universal Model for Organ Segmentation and Tumor Detection](https://mlsanity.com/paper/2301.00785/) (2023)
- [Sequential Modeling Enables Scalable Learning for Large Vision Models](https://mlsanity.com/paper/2312.00785/) (2023)
- [SegGPT: Segmenting Everything In Context](https://mlsanity.com/paper/2304.03284/) (2023)
- [SynthMorph: learning contrast-invariant registration without acquired images](https://mlsanity.com/paper/2004.10282/) (2020)
- [SynthStrip: Skull-Stripping for Any Brain Image](https://mlsanity.com/paper/2203.09974/) (2022)
- [Causality-inspired Single-source Domain Generalization for Medical Image Segmentation](https://mlsanity.com/paper/2111.12525/) (2021)
- [Standardized Assessment of Automatic Segmentation of White Matter Hyperintensities and Results of the WMH Segmentation Challenge](https://mlsanity.com/paper/1904.00682/) (2019)
- [DIVA: Domain Invariant Variational Autoencoders](https://mlsanity.com/paper/1905.10427/) (2019)
- [SAM-Med3D: Towards General-purpose Segmentation Models for Volumetric Medical Images](https://mlsanity.com/paper/2310.15161/) (2023)
- [ISLES 2022: A multi-center magnetic resonance imaging stroke lesion segmentation dataset](https://mlsanity.com/paper/2206.06694/) (2022)
- [3DSAM-adapter: Holistic adaptation of SAM from 2D to 3D for promptable tumor segmentation](https://mlsanity.com/paper/2306.13465/) (2023)
- [The TopCoW Challenge -- Topology-Aware Circle of Willis Segmentation for CT and MR Angiography](https://mlsanity.com/paper/2312.17670/) (2023)
- [Joint super-resolution and synthesis of 1 mm isotropic MP-RAGE volumes from clinical MRI exams with scans of different orientation, resolution and contrast](https://mlsanity.com/paper/2012.13340/) (2020)
- [One-Prompt to Segment All Medical Images](https://mlsanity.com/paper/2305.10300/) (2023)
- [A Learning Strategy for Contrast-agnostic MRI Segmentation](https://mlsanity.com/paper/2003.01995/) (2020)
- [Learning the Effect of Registration Hyperparameters with HyperMorph](https://mlsanity.com/paper/2203.16680/) (2022)
- [SAM3D: Segment Anything Model in Volumetric Medical Images](https://mlsanity.com/paper/2309.03493/) (2023)
- [Universal and Extensible Language-Vision Models for Organ Segmentation and Tumor Detection from Abdominal Computed Tomography](https://mlsanity.com/paper/2405.18356/) (2024)
- [Domain and Content Adaptive Convolution based Multi-Source Domain Generalization for Medical Image Segmentation](https://mlsanity.com/paper/2109.05676/) (2021)
- [MAPSeg: Unified Unsupervised Domain Adaptation for Heterogeneous Medical Image Segmentation Based on 3D Masked Autoencoding and Pseudo-Labeling](https://mlsanity.com/paper/2303.09373/) (2023)
- [Neuralizer: General Neuroimage Analysis without Re-Training](https://mlsanity.com/paper/2305.02644/) (2023)
- [FVP: Fourier Visual Prompting for Source-Free Unsupervised Domain Adaptation of Medical Image Segmentation](https://mlsanity.com/paper/2304.13672/) (2023)

## Built on by (most cited first, 1 of 1)

- [UniMedSeg: Unified In-Context Learning for Multi-Paradigm 2D/3D Medical Image Segmentation](https://mlsanity.com/paper/2607.12896/) (2026)

## Abstract (arXiv)

In-context learning (ICL), a type of universal model, demonstrates exceptional generalization across a wide range of tasks without retraining by leveraging task-specific guidance from context, making it particularly effective for the intricate demands of neuroimaging. However, current ICL models, limited to 2D inputs and thus exhibiting suboptimal performance, struggle to extend to 3D inputs due to the high memory demands of ICL. In this regard, we introduce Neuroverse3D, an ICL model capable of performing multiple neuroimaging tasks in 3D (e.g., segmentation, denoising, inpainting). Neuroverse3D overcomes the large memory consumption associated with 3D inputs through adaptive parallel-sequential context processing and a U-shaped fusion strategy, allowing it to handle an unlimited number of context images. Additionally, we propose an optimized loss function to balance multi-task training and enhance focus on anatomical boundaries. Our study incorporates 43,674 3D multi-modal scans from 19 neuroimaging datasets and evaluates Neuroverse3D on 14 diverse tasks using held-out test sets. The results demonstrate that Neuroverse3D significantly outperforms existing ICL models and closely matches task-specific models, enabling flexible adaptation to medical center variations without retraining. The code and model weights are publicly available at https://github.com/jiesihu/Neuroverse3D.