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Zongwei Zhou

Zongwei Zhou contributes to research discovery and scholarly infrastructure.

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Computer Vision eess.IV Machine Learning Computation and Language Artificial Intelligence eess.AS Sound

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preprint2026arXiv

Beyond Masks: The Case for Medical Image Parsing

Medical imaging research has spent a decade getting very good at one thing: producing per-voxel masks. Masks tell us size, volume, and location, and a decade of clinical infrastructure rests on those outputs. Yet the report a radiologist writes contains almost nothing a mask can express. We argue that medical imaging research should adopt medical image parsing as its central output: a structured representation in which entities, attributes, and relationships are emitted together and mutually consistent. Entities are the named structures and findings, present or absent. Attributes describe those entities, capturing things like margin regularity, enhancement pattern, or severity grade. Relationships connect them, naming where one structure sits relative to another, what abuts what, and what has changed since the prior scan. A good parse satisfies three properties, in order: (1) decision (the parse names the right things in the current image), (2) reconstruction (its content is rich enough to regenerate that image), and (3) prediction (its content is rich enough to forecast how the patient state will evolve). Quantitative measurements are derived from this content; they are not predicted alongside it. To test how close the field is to producing such an output, we audit eleven representative systems against the three parsing primitives plus closure. None emits a well-formed parse. Entities are largely solved. Attributes, relationships, and closure remain near-empty. The path forward is not a new architecture. It is a commitment to a richer output, and to training signals that reward it. Segmentation taught models to measure. Parsing asks them to explain.

preprint2026arXiv

DeepTumorVQA: A Hierarchical 3D CT Benchmark for Stage-Wise Evaluation of Medical VLMs and Tool-Augmented Agents

Medical vision-language models (VLMs) and AI agents have made significant progress in learning to analyze and reason about clinical images. However, existing medical visual question answering (VQA) benchmarks collapse model capabilities into a single accuracy score, obscuring where and why models fail. We propose DeepTumorVQA, a hierarchical benchmark that follows the multi-stage evidence chain in tumor diagnosis and decomposes 3D CT reasoning into four stages: recognition, measurement, visual reasoning, and medical reasoning. Higher-level questions remain independently scorable, while their ground-truth evidence chains are defined over lower-level primitives. The benchmark contains 476K questions across 42 clinical subtypes on 9,262 3D CT volumes. In addition to a direct reasoning mode for VLMs, DeepTumorVQA provides tool-interaction environments for agent evaluation, where a model can call external tools, including segmentation models, measurement programs, and medical knowledge modules, before answering the question. Evaluating over 30 model configurations, we find that reliable quantitative measurement is the primary bottleneck, making later-stage visual and medical reasoning harder for VLMs, while tool augmentation substantially mitigates this issue. When tools are available, leveraging medical knowledge and tools to reason about medical images becomes a new challenge. We further show that ground-truth step-by-step tool-use traces from DeepTumorVQA can supervise agents and reduce tool-use and reasoning failures. This stage-wise progression from recognition to measurement to visual and medical reasoning provides a concrete roadmap for future medical VLM and AI agent studies. All data and code are released at https://github.com/Schuture/DeepTumorVQA.

preprint2026arXiv

RadThinking: A Dataset for Longitudinal Clinical Reasoning in Radiology

Cancer screening is a reasoning task. A radiologist observes findings, compares them to prior scans, integrates clinical context, and reaches a diagnostic conclusion confirmed by pathology. We present RadThinking, a Visual Question Answering (VQA) dataset that makes this reasoning explicit and trainable. RadThinking releases VQA pairs at three difficulty tiers. Foundation VQAs are atomic perception questions. Single-step reasoning VQAs apply one clinical rule. Compositional VQAs require multi-step chain-of-thought to reach a guideline category such as LI-RADS-5. For every compositional VQA, we release the chain of foundation VQAs that solves it. The chain follows the rules of the governing clinical reporting standard. The dataset spans 20,362 CT scans from 9,131 patients across 43 cancer groups, plus 2,077 verified healthy controls with >1-year follow-up. To our knowledge, RadThinking is the first cancer-screening VQA corpus that stratifies questions by reasoning depth and grounds compositions in clinical reporting standards. The foundation tier supplies atomic perception supervision. The compositional tier supplies chain-of-thought data and verifiable rewards for reinforcement-learning recipes such as DeepSeek-R1 and OpenAI o1. RadThinking enables systematic training and evaluation of whether AI systems can reason about cancer, not merely detect it.

preprint2022arXiv

AutoDistill: an End-to-End Framework to Explore and Distill Hardware-Efficient Language Models

Recently, large pre-trained models have significantly improved the performance of various Natural LanguageProcessing (NLP) tasks but they are expensive to serve due to long serving latency and large memory usage. To compress these models, knowledge distillation has attracted an increasing amount of interest as one of the most effective methods for model compression. However, existing distillation methods have not yet addressed the unique challenges of model serving in datacenters, such as handling fast evolving models, considering serving performance, and optimizing for multiple objectives. To solve these problems, we propose AutoDistill, an end-to-end model distillation framework integrating model architecture exploration and multi-objective optimization for building hardware-efficient NLP pre-trained models. We use Bayesian Optimization to conduct multi-objective Neural Architecture Search for selecting student model architectures. The proposed search comprehensively considers both prediction accuracy and serving latency on target hardware. The experiments on TPUv4i show the finding of seven model architectures with better pre-trained accuracy (up to 3.2% higher) and lower inference latency (up to 1.44x faster) than MobileBERT. By running downstream NLP tasks in the GLUE benchmark, the model distilled for pre-training by AutoDistill with 28.5M parameters achieves an 81.69 average score, which is higher than BERT_BASE, DistillBERT, TinyBERT, NAS-BERT, and MobileBERT. The most compact model found by AutoDistill contains only 20.6M parameters but still outperform BERT_BASE(109M), DistillBERT(67M), TinyBERT(67M), and MobileBERT(25.3M) regarding the average GLUE score. By evaluating on SQuAD, a model found by AutoDistill achieves an 88.4% F1 score with 22.8M parameters, which reduces parameters by more than 62% while maintaining higher accuracy than DistillBERT, TinyBERT, and NAS-BERT.

preprint2022arXiv

BigSSL: Exploring the Frontier of Large-Scale Semi-Supervised Learning for Automatic Speech Recognition

We summarize the results of a host of efforts using giant automatic speech recognition (ASR) models pre-trained using large, diverse unlabeled datasets containing approximately a million hours of audio. We find that the combination of pre-training, self-training and scaling up model size greatly increases data efficiency, even for extremely large tasks with tens of thousands of hours of labeled data. In particular, on an ASR task with 34k hours of labeled data, by fine-tuning an 8 billion parameter pre-trained Conformer model we can match state-of-the-art (SoTA) performance with only 3% of the training data and significantly improve SoTA with the full training set. We also report on the universal benefits gained from using big pre-trained and self-trained models for a large set of downstream tasks that cover a wide range of speech domains and span multiple orders of magnitudes of dataset sizes, including obtaining SoTA performance on many public benchmarks. In addition, we utilize the learned representation of pre-trained networks to achieve SoTA results on non-ASR tasks.

preprint2022arXiv

CateNorm: Categorical Normalization for Robust Medical Image Segmentation

Batch normalization (BN) uniformly shifts and scales the activations based on the statistics of a batch of images. However, the intensity distribution of the background pixels often dominates the BN statistics because the background accounts for a large proportion of the entire image. This paper focuses on enhancing BN with the intensity distribution of foreground pixels, the one that really matters for image segmentation. We propose a new normalization strategy, named categorical normalization (CateNorm), to normalize the activations according to categorical statistics. The categorical statistics are obtained by dynamically modulating specific regions in an image that belong to the foreground. CateNorm demonstrates both precise and robust segmentation results across five public datasets obtained from different domains, covering complex and variable data distributions. It is attributable to the ability of CateNorm to capture domain-invariant information from multiple domains (institutions) of medical data. Code is available at https://github.com/lambert-x/CateNorm.

preprint2022arXiv

GLaM: Efficient Scaling of Language Models with Mixture-of-Experts

Scaling language models with more data, compute and parameters has driven significant progress in natural language processing. For example, thanks to scaling, GPT-3 was able to achieve strong results on in-context learning tasks. However, training these large dense models requires significant amounts of computing resources. In this paper, we propose and develop a family of language models named GLaM (Generalist Language Model), which uses a sparsely activated mixture-of-experts architecture to scale the model capacity while also incurring substantially less training cost compared to dense variants. The largest GLaM has 1.2 trillion parameters, which is approximately 7x larger than GPT-3. It consumes only 1/3 of the energy used to train GPT-3 and requires half of the computation flops for inference, while still achieving better overall zero-shot and one-shot performance across 29 NLP tasks.

preprint2022arXiv

Learning from Temporal Gradient for Semi-supervised Action Recognition

Semi-supervised video action recognition tends to enable deep neural networks to achieve remarkable performance even with very limited labeled data. However, existing methods are mainly transferred from current image-based methods (e.g., FixMatch). Without specifically utilizing the temporal dynamics and inherent multimodal attributes, their results could be suboptimal. To better leverage the encoded temporal information in videos, we introduce temporal gradient as an additional modality for more attentive feature extraction in this paper. To be specific, our method explicitly distills the fine-grained motion representations from temporal gradient (TG) and imposes consistency across different modalities (i.e., RGB and TG). The performance of semi-supervised action recognition is significantly improved without additional computation or parameters during inference. Our method achieves the state-of-the-art performance on three video action recognition benchmarks (i.e., Kinetics-400, UCF-101, and HMDB-51) under several typical semi-supervised settings (i.e., different ratios of labeled data).

preprint2022arXiv

Unsupervised Domain Adaptation through Shape Modeling for Medical Image Segmentation

Shape information is a strong and valuable prior in segmenting organs in medical images. However, most current deep learning based segmentation algorithms have not taken shape information into consideration, which can lead to bias towards texture. We aim at modeling shape explicitly and using it to help medical image segmentation. Previous methods proposed Variational Autoencoder (VAE) based models to learn the distribution of shape for a particular organ and used it to automatically evaluate the quality of a segmentation prediction by fitting it into the learned shape distribution. Based on which we aim at incorporating VAE into current segmentation pipelines. Specifically, we propose a new unsupervised domain adaptation pipeline based on a pseudo loss and a VAE reconstruction loss under a teacher-student learning paradigm. Both losses are optimized simultaneously and, in return, boost the segmentation task performance. Extensive experiments on three public Pancreas segmentation datasets as well as two in-house Pancreas segmentation datasets show consistent improvements with at least 2.8 points gain in the Dice score, demonstrating the effectiveness of our method in challenging unsupervised domain adaptation scenarios for medical image segmentation. We hope this work will advance shape analysis and geometric learning in medical imaging.

preprint2021arXiv

Transferable Visual Words: Exploiting the Semantics of Anatomical Patterns for Self-supervised Learning

This paper introduces a new concept called "transferable visual words" (TransVW), aiming to achieve annotation efficiency for deep learning in medical image analysis. Medical imaging--focusing on particular parts of the body for defined clinical purposes--generates images of great similarity in anatomy across patients and yields sophisticated anatomical patterns across images, which are associated with rich semantics about human anatomy and which are natural visual words. We show that these visual words can be automatically harvested according to anatomical consistency via self-discovery, and that the self-discovered visual words can serve as strong yet free supervision signals for deep models to learn semantics-enriched generic image representation via self-supervision (self-classification and self-restoration). Our extensive experiments demonstrate the annotation efficiency of TransVW by offering higher performance and faster convergence with reduced annotation cost in several applications. Our TransVW has several important advantages, including (1) TransVW is a fully autodidactic scheme, which exploits the semantics of visual words for self-supervised learning, requiring no expert annotation; (2) visual word learning is an add-on strategy, which complements existing self-supervised methods, boosting their performance; and (3) the learned image representation is semantics-enriched models, which have proven to be more robust and generalizable, saving annotation efforts for a variety of applications through transfer learning. Our code, pre-trained models, and curated visual words are available at https://github.com/JLiangLab/TransVW.

preprint2020arXiv

Learning Semantics-enriched Representation via Self-discovery, Self-classification, and Self-restoration

Medical images are naturally associated with rich semantics about the human anatomy, reflected in an abundance of recurring anatomical patterns, offering unique potential to foster deep semantic representation learning and yield semantically more powerful models for different medical applications. But how exactly such strong yet free semantics embedded in medical images can be harnessed for self-supervised learning remains largely unexplored. To this end, we train deep models to learn semantically enriched visual representation by self-discovery, self-classification, and self-restoration of the anatomy underneath medical images, resulting in a semantics-enriched, general-purpose, pre-trained 3D model, named Semantic Genesis. We examine our Semantic Genesis with all the publicly-available pre-trained models, by either self-supervision or fully supervision, on the six distinct target tasks, covering both classification and segmentation in various medical modalities (i.e.,CT, MRI, and X-ray). Our extensive experiments demonstrate that Semantic Genesis significantly exceeds all of its 3D counterparts as well as the de facto ImageNet-based transfer learning in 2D. This performance is attributed to our novel self-supervised learning framework, encouraging deep models to learn compelling semantic representation from abundant anatomical patterns resulting from consistent anatomies embedded in medical images. Code and pre-trained Semantic Genesis are available at https://github.com/JLiangLab/SemanticGenesis .

preprint2020arXiv

UNet++: Redesigning Skip Connections to Exploit Multiscale Features in Image Segmentation

The state-of-the-art models for medical image segmentation are variants of U-Net and fully convolutional networks (FCN). Despite their success, these models have two limitations: (1) their optimal depth is apriori unknown, requiring extensive architecture search or inefficient ensemble of models of varying depths; and (2) their skip connections impose an unnecessarily restrictive fusion scheme, forcing aggregation only at the same-scale feature maps of the encoder and decoder sub-networks. To overcome these two limitations, we propose UNet++, a new neural architecture for semantic and instance segmentation, by (1) alleviating the unknown network depth with an efficient ensemble of U-Nets of varying depths, which partially share an encoder and co-learn simultaneously using deep supervision; (2) redesigning skip connections to aggregate features of varying semantic scales at the decoder sub-networks, leading to a highly flexible feature fusion scheme; and (3) devising a pruning scheme to accelerate the inference speed of UNet++. We have evaluated UNet++ using six different medical image segmentation datasets, covering multiple imaging modalities such as computed tomography (CT), magnetic resonance imaging (MRI), and electron microscopy (EM), and demonstrating that (1) UNet++ consistently outperforms the baseline models for the task of semantic segmentation across different datasets and backbone architectures; (2) UNet++ enhances segmentation quality of varying-size objects -- an improvement over the fixed-depth U-Net; (3) Mask RCNN++ (Mask R-CNN with UNet++ design) outperforms the original Mask R-CNN for the task of instance segmentation; and (4) pruned UNet++ models achieve significant speedup while showing only modest performance degradation. Our implementation and pre-trained models are available at https://github.com/MrGiovanni/UNetPlusPlus.

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