arXiv subjects

Jieneng Chen

Publications and source records attributed to Jieneng Chen.

At least 37 records · Page 2Linked to original sources

arXiv2025

Generative World Explorer

Planning with partial observation is a central challenge in embodied AI. A majority of prior works have tackled this challenge by developing agents that physically explore their environment to update their beliefs about the world state. In contrast, humans can $\textit{imagine}$ unseen parts of the world through a mental exploration and $\textit{revise}$ their beliefs with imagined observations. Such updated beliefs can allow them to make more informed decisions, without necessitating the physical exploration of the world at all times. To achieve this human-like ability, we introduce the $\textit{Generative World Explorer (Genex)}$, an egocentric world exploration framework that allows an agent to mentally explore a large-scale 3D world (e.g., urban scenes) and acquire imagined observations to update its belief. This updated belief will then help the agent to make a more informed decision at the current step. To train $\textit{Genex}$, we create a synthetic urban scene dataset, Genex-DB. Our experimental results demonstrate that (1) $\textit{Genex}$ can generate high-quality and consistent observations during long-horizon exploration of a large virtual physical world and (2) the beliefs updated with the generated observations can inform an existing decision-making model (e.g., an LLM agent) to make better plans.

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arXiv2025

Prompt-Based Exemplar Super-Compression and Regeneration for Class-Incremental Learning

Replay-based methods in class-incremental learning (CIL) have attained remarkable success. Despite their effectiveness, the inherent memory restriction results in saving a limited number of exemplars with poor diversity. In this paper, we introduce PESCR, a novel approach that substantially increases the quantity and enhances the diversity of exemplars based on a pre-trained general-purpose diffusion model, without fine-tuning it on target datasets or storing it in the memory buffer. Images are compressed into visual and textual prompts, which are saved instead of the original images, decreasing memory consumption by a factor of 24. In subsequent phases, diverse exemplars are regenerated by the diffusion model. We further propose partial compression and diffusion-based data augmentation to minimize the domain gap between generated exemplars and real images. PESCR significantly improves CIL performance across multiple benchmarks, e.g., 3.2% above the previous state-of-the-art on ImageNet-100.

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arXiv2025

4D-Animal: Freely Reconstructing Animatable 3D Animals from Videos

Existing methods for reconstructing animatable 3D animals from videos typically rely on sparse semantic keypoints to fit parametric models. However, obtaining such keypoints is labor-intensive, and keypoint detectors trained on limited animal data are often unreliable. To address this, we propose 4D-Animal, a novel framework that reconstructs animatable 3D animals from videos without requiring sparse keypoint annotations. Our approach introduces a dense feature network that maps 2D representations to SMAL parameters, enhancing both the efficiency and stability of the fitting process. Furthermore, we develop a hierarchical alignment strategy that integrates silhouette, part-level, pixel-level, and temporal cues from pre-trained 2D visual models to produce accurate and temporally coherent reconstructions across frames. Extensive experiments demonstrate that 4D-Animal outperforms both model-based and model-free baselines. Moreover, the high-quality 3D assets generated by our method can benefit other 3D tasks, underscoring its potential for large-scale applications. The code is released at https://github.com/zhongshsh/4D-Animal.

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arXiv2025

Vision-Language-Vision Auto-Encoder: Scalable Knowledge Distillation from Diffusion Models

Building state-of-the-art Vision-Language Models (VLMs) with strong captioning capabilities typically necessitates training on billions of high-quality image-text pairs, requiring millions of GPU hours. This paper introduces the Vision-Language-Vision (VLV) auto-encoder framework, which strategically leverages key pretrained components: a vision encoder, the decoder of a Text-to-Image (T2I) diffusion model, and subsequently, a Large Language Model (LLM). Specifically, we establish an information bottleneck by regularizing the language representation space, achieved through freezing the pretrained T2I diffusion decoder. Our VLV pipeline effectively distills knowledge from the text-conditioned diffusion model using continuous embeddings, demonstrating comprehensive semantic understanding via high-quality reconstructions. Furthermore, by fine-tuning a pretrained LLM to decode the intermediate language representations into detailed descriptions, we construct a state-of-the-art (SoTA) captioner comparable to leading models like GPT-4o and Gemini 2.0 Flash. Our method demonstrates exceptional cost-efficiency and significantly reduces data requirements; by primarily utilizing single-modal images for training and maximizing the utility of existing pretrained models (image encoder, T2I diffusion model, and LLM), it circumvents the need for massive paired image-text datasets, keeping the total training expenditure under $1,000 USD.

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arXiv2025

Learning Segmentation from Radiology Reports

Tumor segmentation in CT scans is key for diagnosis, surgery, and prognosis, yet segmentation masks are scarce because their creation requires time and expertise. Public abdominal CT datasets have from dozens to a couple thousand tumor masks, but hospitals have hundreds of thousands of tumor CTs with radiology reports. Thus, leveraging reports to improve segmentation is key for scaling. In this paper, we propose a report-supervision loss (R-Super) that converts radiology reports into voxel-wise supervision for tumor segmentation AI. We created a dataset with 6,718 CT-Report pairs (from the UCSF Hospital), and merged it with public CT-Mask datasets (from AbdomenAtlas 2.0). We used our R-Super to train with these masks and reports, and strongly improved tumor segmentation in internal and external validation--F1 Score increased by up to 16% with respect to training with masks only. By leveraging readily available radiology reports to supplement scarce segmentation masks, R-Super strongly improves AI performance both when very few training masks are available (e.g., 50), and when many masks were available (e.g., 1.7K). Project: https://github.com/MrGiovanni/R-Super

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arXiv2025

SpatialLLM: A Compound 3D-Informed Design towards Spatially-Intelligent Large Multimodal Models

Humans naturally understand 3D spatial relationships, enabling complex reasoning like predicting collisions of vehicles from different directions. Current large multimodal models (LMMs), however, lack of this capability of 3D spatial reasoning. This limitation stems from the scarcity of 3D training data and the bias in current model designs toward 2D data. In this paper, we systematically study the impact of 3D-informed data, architecture, and training setups, introducing SpatialLLM, a large multi-modal model with advanced 3D spatial reasoning abilities. To address data limitations, we develop two types of 3D-informed training datasets: (1) 3D-informed probing data focused on object's 3D location and orientation, and (2) 3D-informed conversation data for complex spatial relationships. Notably, we are the first to curate VQA data that incorporate 3D orientation relationships on real images. Furthermore, we systematically integrate these two types of training data with the architectural and training designs of LMMs, providing a roadmap for optimal design aimed at achieving superior 3D reasoning capabilities. Our SpatialLLM advances machines toward highly capable 3D-informed reasoning, surpassing GPT-4o performance by 8.7%. Our systematic empirical design and the resulting findings offer valuable insights for future research in this direction. Our project page is available at: https://3d-spatial-reasoning.github.io/spatial-llm/

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arXiv2025

Spatial457: A Diagnostic Benchmark for 6D Spatial Reasoning of Large Multimodal Models

Although large multimodal models (LMMs) have demonstrated remarkable capabilities in visual scene interpretation and reasoning, their capacity for complex and precise 3-dimensional spatial reasoning remains uncertain. Existing benchmarks focus predominantly on 2D spatial understanding and lack a framework to comprehensively evaluate 6D spatial reasoning across varying complexities. To address this limitation, we present Spatial457, a scalable and unbiased synthetic dataset designed with 4 key capability for spatial reasoning: multi-object recognition, 2D location, 3D location, and 3D orientation. We develop a cascading evaluation structure, constructing 7 question types across 5 difficulty levels that range from basic single object recognition to our new proposed complex 6D spatial reasoning tasks. We evaluated various large multimodal models (LMMs) on PulseCheck457, observing a general decline in performance as task complexity increases, particularly in 3D reasoning and 6D spatial tasks. To quantify these challenges, we introduce the Relative Performance Dropping Rate (RPDR), highlighting key weaknesses in 3D reasoning capabilities. Leveraging the unbiased attribute design of our dataset, we also uncover prediction biases across different attributes, with similar patterns observed in real-world image settings. The code and data are released in https://github.com/XingruiWang/Spatial457.

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arXiv2025

Medical World Model: Generative Simulation of Tumor Evolution for Treatment Planning

Providing effective treatment and making informed clinical decisions are essential goals of modern medicine and clinical care. We are interested in simulating disease dynamics for clinical decision-making, leveraging recent advances in large generative models. To this end, we introduce the Medical World Model (MeWM), the first world model in medicine that visually predicts future disease states based on clinical decisions. MeWM comprises (i) vision-language models to serve as policy models, and (ii) tumor generative models as dynamics models. The policy model generates action plans, such as clinical treatments, while the dynamics model simulates tumor progression or regression under given treatment conditions. Building on this, we propose the inverse dynamics model that applies survival analysis to the simulated post-treatment tumor, enabling the evaluation of treatment efficacy and the selection of the optimal clinical action plan. As a result, the proposed MeWM simulates disease dynamics by synthesizing post-treatment tumors, with state-of-the-art specificity in Turing tests evaluated by radiologists. Simultaneously, its inverse dynamics model outperforms medical-specialized GPTs in optimizing individualized treatment protocols across all metrics. Notably, MeWM improves clinical decision-making for interventional physicians, boosting F1-score in selecting the optimal TACE protocol by 13%, paving the way for future integration of medical world models as the second readers.

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arXiv2025

Touchstone Benchmark: Are We on the Right Way for Evaluating AI Algorithms for Medical Segmentation?

How can we test AI performance? This question seems trivial, but it isn't. Standard benchmarks often have problems such as in-distribution and small-size test sets, oversimplified metrics, unfair comparisons, and short-term outcome pressure. As a consequence, good performance on standard benchmarks does not guarantee success in real-world scenarios. To address these problems, we present Touchstone, a large-scale collaborative segmentation benchmark of 9 types of abdominal organs. This benchmark is based on 5,195 training CT scans from 76 hospitals around the world and 5,903 testing CT scans from 11 additional hospitals. This diverse test set enhances the statistical significance of benchmark results and rigorously evaluates AI algorithms across various out-of-distribution scenarios. We invited 14 inventors of 19 AI algorithms to train their algorithms, while our team, as a third party, independently evaluated these algorithms on three test sets. In addition, we also evaluated pre-existing AI frameworks--which, differing from algorithms, are more flexible and can support different algorithms--including MONAI from NVIDIA, nnU-Net from DKFZ, and numerous other open-source frameworks. We are committed to expanding this benchmark to encourage more innovation of AI algorithms for the medical domain.

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arXiv2025

GenEx: Generating an Explorable World

Understanding, navigating, and exploring the 3D physical real world has long been a central challenge in the development of artificial intelligence. In this work, we take a step toward this goal by introducing GenEx, a system capable of planning complex embodied world exploration, guided by its generative imagination that forms priors (expectations) about the surrounding environments. GenEx generates an entire 3D-consistent imaginative environment from as little as a single RGB image, bringing it to life through panoramic video streams. Leveraging scalable 3D world data curated from Unreal Engine, our generative model is rounded in the physical world. It captures a continuous 360-degree environment with little effort, offering a boundless landscape for AI agents to explore and interact with. GenEx achieves high-quality world generation, robust loop consistency over long trajectories, and demonstrates strong 3D capabilities such as consistency and active 3D mapping. Powered by generative imagination of the world, GPT-assisted agents are equipped to perform complex embodied tasks, including both goal-agnostic exploration and goal-driven navigation. These agents utilize predictive expectation regarding unseen parts of the physical world to refine their beliefs, simulate different outcomes based on potential decisions, and make more informed choices. In summary, we demonstrate that GenEx provides a transformative platform for advancing embodied AI in imaginative spaces and brings potential for extending these capabilities to real-world exploration.

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arXiv2024

Efficient Large Multi-modal Models via Visual Context Compression

While significant advancements have been made in compressed representations for text embeddings in large language models (LLMs), the compression of visual tokens in multi-modal LLMs (MLLMs) has remained a largely overlooked area. In this work, we present the study on the analysis of redundancy concerning visual tokens and efficient training within these models. Our initial experiments show that eliminating up to 70% of visual tokens at the testing stage by simply average pooling only leads to a minimal 3% reduction in visual question answering accuracy on the GQA benchmark, indicating significant redundancy in visual context. Addressing this, we introduce Visual Context Compressor, which reduces the number of visual tokens to enhance training and inference efficiency without sacrificing performance. To minimize information loss caused by the compression on visual tokens while maintaining training efficiency, we develop LLaVolta as a light and staged training scheme that incorporates stage-wise visual context compression to progressively compress the visual tokens from heavily to lightly compression during training, yielding no loss of information when testing. Extensive experiments demonstrate that our approach enhances the performance of MLLMs in both image-language and video-language understanding, while also significantly cutting training costs and improving inference efficiency.

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arXiv2024

ViTamin: Designing Scalable Vision Models in the Vision-Language Era

Recent breakthroughs in vision-language models (VLMs) start a new page in the vision community. The VLMs provide stronger and more generalizable feature embeddings compared to those from ImageNet-pretrained models, thanks to the training on the large-scale Internet image-text pairs. However, despite the amazing achievement from the VLMs, vanilla Vision Transformers (ViTs) remain the default choice for the image encoder. Although pure transformer proves its effectiveness in the text encoding area, it remains questionable whether it is also the case for image encoding, especially considering that various types of networks are proposed on the ImageNet benchmark, which, unfortunately, are rarely studied in VLMs. Due to small data/model scale, the original conclusions of model design on ImageNet can be limited and biased. In this paper, we aim at building an evaluation protocol of vision models in the vision-language era under the contrastive language-image pretraining (CLIP) framework. We provide a comprehensive way to benchmark different vision models, covering their zero-shot performance and scalability in both model and training data sizes. To this end, we introduce ViTamin, a new vision models tailored for VLMs. ViTamin-L significantly outperforms ViT-L by 2.0% ImageNet zero-shot accuracy, when using the same publicly available DataComp-1B dataset and the same OpenCLIP training scheme. ViTamin-L presents promising results on 60 diverse benchmarks, including classification, retrieval, open-vocabulary detection and segmentation, and large multi-modal models. When further scaling up the model size, our ViTamin-XL with only 436M parameters attains 82.9% ImageNet zero-shot accuracy, surpassing 82.0% achieved by EVA-E that has ten times more parameters (4.4B).

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arXiv2024

3D-TransUNet for Brain Metastases Segmentation in the BraTS2023 Challenge

Segmenting brain tumors is complex due to their diverse appearances and scales. Brain metastases, the most common type of brain tumor, are a frequent complication of cancer. Therefore, an effective segmentation model for brain metastases must adeptly capture local intricacies to delineate small tumor regions while also integrating global context to understand broader scan features. The TransUNet model, which combines Transformer self-attention with U-Net's localized information, emerges as a promising solution for this task. In this report, we address brain metastases segmentation by training the 3D-TransUNet model on the Brain Tumor Segmentation (BraTS-METS) 2023 challenge dataset. Specifically, we explored two architectural configurations: the Encoder-only 3D-TransUNet, employing Transformers solely in the encoder, and the Decoder-only 3D-TransUNet, utilizing Transformers exclusively in the decoder. For Encoder-only 3D-TransUNet, we note that Masked-Autoencoder pre-training is required for a better initialization of the Transformer Encoder and thus accelerates the training process. We identify that the Decoder-only 3D-TransUNet model should offer enhanced efficacy in the segmentation of brain metastases, as indicated by our 5-fold cross-validation on the training set. However, our use of the Encoder-only 3D-TransUNet model already yield notable results, with an average lesion-wise Dice score of 59.8\% on the test set, securing second place in the BraTS-METS 2023 challenge.

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arXiv2023

Compositor: Bottom-up Clustering and Compositing for Robust Part and Object Segmentation

In this work, we present a robust approach for joint part and object segmentation. Specifically, we reformulate object and part segmentation as an optimization problem and build a hierarchical feature representation including pixel, part, and object-level embeddings to solve it in a bottom-up clustering manner. Pixels are grouped into several clusters where the part-level embeddings serve as cluster centers. Afterwards, object masks are obtained by compositing the part proposals. This bottom-up interaction is shown to be effective in integrating information from lower semantic levels to higher semantic levels. Based on that, our novel approach Compositor produces part and object segmentation masks simultaneously while improving the mask quality. Compositor achieves state-of-the-art performance on PartImageNet and Pascal-Part by outperforming previous methods by around 0.9% and 1.3% on PartImageNet, 0.4% and 1.7% on Pascal-Part in terms of part and object mIoU and demonstrates better robustness against occlusion by around 4.4% and 7.1% on part and object respectively. Code will be available at https://github.com/TACJu/Compositor.

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arXiv2023

3D TransUNet: Advancing Medical Image Segmentation through Vision Transformers

Medical image segmentation plays a crucial role in advancing healthcare systems for disease diagnosis and treatment planning. The u-shaped architecture, popularly known as U-Net, has proven highly successful for various medical image segmentation tasks. However, U-Net's convolution-based operations inherently limit its ability to model long-range dependencies effectively. To address these limitations, researchers have turned to Transformers, renowned for their global self-attention mechanisms, as alternative architectures. One popular network is our previous TransUNet, which leverages Transformers' self-attention to complement U-Net's localized information with the global context. In this paper, we extend the 2D TransUNet architecture to a 3D network by building upon the state-of-the-art nnU-Net architecture, and fully exploring Transformers' potential in both the encoder and decoder design. We introduce two key components: 1) A Transformer encoder that tokenizes image patches from a convolution neural network (CNN) feature map, enabling the extraction of global contexts, and 2) A Transformer decoder that adaptively refines candidate regions by utilizing cross-attention between candidate proposals and U-Net features. Our investigations reveal that different medical tasks benefit from distinct architectural designs. The Transformer encoder excels in multi-organ segmentation, where the relationship among organs is crucial. On the other hand, the Transformer decoder proves more beneficial for dealing with small and challenging segmented targets such as tumor segmentation. Extensive experiments showcase the significant potential of integrating a Transformer-based encoder and decoder into the u-shaped medical image segmentation architecture. TransUNet outperforms competitors in various medical applications.

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arXiv2023

CancerUniT: Towards a Single Unified Model for Effective Detection, Segmentation, and Diagnosis of Eight Major Cancers Using a Large Collection of CT Scans

Human readers or radiologists routinely perform full-body multi-organ multi-disease detection and diagnosis in clinical practice, while most medical AI systems are built to focus on single organs with a narrow list of a few diseases. This might severely limit AI's clinical adoption. A certain number of AI models need to be assembled non-trivially to match the diagnostic process of a human reading a CT scan. In this paper, we construct a Unified Tumor Transformer (CancerUniT) model to jointly detect tumor existence & location and diagnose tumor characteristics for eight major cancers in CT scans. CancerUniT is a query-based Mask Transformer model with the output of multi-tumor prediction. We decouple the object queries into organ queries, tumor detection queries and tumor diagnosis queries, and further establish hierarchical relationships among the three groups. This clinically-inspired architecture effectively assists inter- and intra-organ representation learning of tumors and facilitates the resolution of these complex, anatomically related multi-organ cancer image reading tasks. CancerUniT is trained end-to-end using a curated large-scale CT images of 10,042 patients including eight major types of cancers and occurring non-cancer tumors (all are pathology-confirmed with 3D tumor masks annotated by radiologists). On the test set of 631 patients, CancerUniT has demonstrated strong performance under a set of clinically relevant evaluation metrics, substantially outperforming both multi-disease methods and an assembly of eight single-organ expert models in tumor detection, segmentation, and diagnosis. This moves one step closer towards a universal high performance cancer screening tool.

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arXiv2023

Semi-supervised Medical Image Segmentation through Dual-task Consistency

Deep learning-based semi-supervised learning (SSL) algorithms have led to promising results in medical images segmentation and can alleviate doctors' expensive annotations by leveraging unlabeled data. However, most of the existing SSL algorithms in literature tend to regularize the model training by perturbing networks and/or data. Observing that multi/dual-task learning attends to various levels of information which have inherent prediction perturbation, we ask the question in this work: can we explicitly build task-level regularization rather than implicitly constructing networks- and/or data-level perturbation-and-transformation for SSL? To answer this question, we propose a novel dual-task-consistency semi-supervised framework for the first time. Concretely, we use a dual-task deep network that jointly predicts a pixel-wise segmentation map and a geometry-aware level set representation of the target. The level set representation is converted to an approximated segmentation map through a differentiable task transform layer. Simultaneously, we introduce a dual-task consistency regularization between the level set-derived segmentation maps and directly predicted segmentation maps for both labeled and unlabeled data. Extensive experiments on two public datasets show that our method can largely improve the performance by incorporating the unlabeled data. Meanwhile, our framework outperforms the state-of-the-art semi-supervised medical image segmentation methods. Code is available at: https://github.com/Luoxd1996/DTC

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arXiv2023

Label-Free Liver Tumor Segmentation

We demonstrate that AI models can accurately segment liver tumors without the need for manual annotation by using synthetic tumors in CT scans. Our synthetic tumors have two intriguing advantages: (I) realistic in shape and texture, which even medical professionals can confuse with real tumors; (II) effective for training AI models, which can perform liver tumor segmentation similarly to the model trained on real tumors -- this result is exciting because no existing work, using synthetic tumors only, has thus far reached a similar or even close performance to real tumors. This result also implies that manual efforts for annotating tumors voxel by voxel (which took years to create) can be significantly reduced in the future. Moreover, our synthetic tumors can automatically generate many examples of small (or even tiny) synthetic tumors and have the potential to improve the success rate of detecting small liver tumors, which is critical for detecting the early stages of cancer. In addition to enriching the training data, our synthesizing strategy also enables us to rigorously assess the AI robustness.

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