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Zeyu Gao

Zeyu Gao contributes to research discovery and scholarly infrastructure.

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Published work

6 published item(s)

preprint2026arXiv

Information-Theoretic Generalization Bounds of Replay-based Continual Learning

Continual learning (CL) has emerged as a dominant paradigm for acquiring knowledge from sequential tasks while avoiding catastrophic forgetting. Although many CL methods have been proposed to show impressive empirical performance, the theoretical understanding of their generalization behavior remains limited, particularly for replay-based approaches. This paper establishes a unified theoretical framework for replay-based CL, deriving a series of information-theoretic generalization bounds that explicitly elucidate the impact of the memory buffer alongside the current task on generalization performance. Specifically, our hypothesis-based bounds capture the trade-off between the number of selected exemplars and the information dependency between the hypothesis and the memory buffer. Our prediction-based bounds yield tighter and computationally tractable upper bounds on the generalization error by leveraging low-dimensional variables. Theoretical analysis is general and broadly applicable to a wide range of learning algorithms, exemplified by stochastic gradient Langevin dynamics (SGLD) as a representative method. Comprehensive experimental evaluations demonstrate the effectiveness of our derived bounds in capturing the generalization dynamics in replay-based CL settings.

preprint2026arXiv

Thinking in Scales: Accelerating Gigapixel Pathology Image Analysis via Adaptive Continuous Reasoning

Traditional whole slide image (WSI) analysis methods typically rely on the multiple instance learning (MIL) paradigm, which extracts patch-level features at high magnification and aggregates them for slide-level prediction. However, such exhaustive patch-level processing is computationally expensive, severely limiting the efficiency and scalability of WSI analysis. To address this challenge, we propose PathCTM (a Pathology-oriented Continuous Thought Model) that enables token-efficient scale-space continuous reasoning for gigapixel WSIs. PathCTM formulates diagnostic inference as a dynamic sequential information pursuit. It progressively transitions from low-magnification global to high-magnification local inspection, and adaptively terminates inference when sufficient evidence is gathered to effectively bound decision uncertainty. Specifically, it uses conditional computation for dynamic scale switching with attention-guided region pruning, coupled with confidence-aware early stopping. Extensive experiments demonstrate that, compared with standard MIL-based methods, PathCTM reduces the number of required image patches by 95.95% and shortens inference time by approximately 95.62%, while maintaining AUC without degradation. Code is available at https://github.com/JSGe-AI/PathCTM.

preprint2022arXiv

jTrans: Jump-Aware Transformer for Binary Code Similarity

Binary code similarity detection (BCSD) has important applications in various fields such as vulnerability detection, software component analysis, and reverse engineering. Recent studies have shown that deep neural networks (DNNs) can comprehend instructions or control-flow graphs (CFG) of binary code and support BCSD. In this study, we propose a novel Transformer-based approach, namely jTrans, to learn representations of binary code. It is the first solution that embeds control flow information of binary code into Transformer-based language models, by using a novel jump-aware representation of the analyzed binaries and a newly-designed pre-training task. Additionally, we release to the community a newly-created large dataset of binaries, BinaryCorp, which is the most diverse to date. Evaluation results show that jTrans outperforms state-of-the-art (SOTA) approaches on this more challenging dataset by 30.5% (i.e., from 32.0% to 62.5%). In a real-world task of known vulnerability searching, jTrans achieves a recall that is 2X higher than existing SOTA baselines.

preprint2020arXiv

Effects of annotation granularity in deep learning models for histopathological images

Pathological is crucial to cancer diagnosis. Usually, Pathologists draw their conclusion based on observed cell and tissue structure on histology slides. Rapid development in machine learning, especially deep learning have established robust and accurate classifiers. They are being used to analyze histopathological slides and assist pathologists in diagnosis. Most machine learning systems rely heavily on annotated data sets to gain experiences and knowledge to correctly and accurately perform various tasks such as classification and segmentation. This work investigates different granularity of annotations in histopathological data set including image-wise, bounding box, ellipse-wise, and pixel-wise to verify the influence of annotation in pathological slide on deep learning models. We design corresponding experiments to test classification and segmentation performance of deep learning models based on annotations with different annotation granularity. In classification, state-of-the-art deep learning-based classifiers perform better when trained by pixel-wise annotation dataset. On average, precision, recall and F1-score improves by 7.87%, 8.83% and 7.85% respectively. Thus, it is suggested that finer granularity annotations are better utilized by deep learning algorithms in classification tasks. Similarly, semantic segmentation algorithms can achieve 8.33% better segmentation accuracy when trained by pixel-wise annotations. Our study shows not only that finer-grained annotation can improve the performance of deep learning models, but also help extracts more accurate phenotypic information from histopathological slides. Intelligence systems trained on granular annotations may help pathologists inspecting certain regions for better diagnosis. The compartmentalized prediction approach similar to this work may contribute to phenotype and genotype association studies.

preprint2020arXiv

OpenHI2 -- Open source histopathological image platform

Transition from conventional to digital pathology requires a new category of biomedical informatic infrastructure which could facilitate delicate pathological routine. Pathological diagnoses are sensitive to many external factors and is known to be subjective. Only systems that can meet strict requirements in pathology would be able to run along pathological routines and eventually digitized the study area, and the developed platform should comply with existing pathological routines and international standards. Currently, there are a number of available software tools which can perform histopathological tasks including virtual slide viewing, annotating, and basic image analysis, however, none of them can serve as a digital platform for pathology. Here we describe OpenHI2, an enhanced version Open Histopathological Image platform which is capable of supporting all basic pathological tasks and file formats; ready to be deployed in medical institutions on a standard server environment or cloud computing infrastructure. In this paper, we also describe the development decisions for the platform and propose solutions to overcome technical challenges so that OpenHI2 could be used as a platform for histopathological images. Further addition can be made to the platform since each component is modularized and fully documented. OpenHI2 is free, open-source, and available at https://gitlab.com/BioAI/OpenHI.

preprint2020arXiv

Renal Cell Carcinoma Detection and Subtyping with Minimal Point-Based Annotation in Whole-Slide Images

Obtaining a large amount of labeled data in medical imaging is laborious and time-consuming, especially for histopathology. However, it is much easier and cheaper to get unlabeled data from whole-slide images (WSIs). Semi-supervised learning (SSL) is an effective way to utilize unlabeled data and alleviate the need for labeled data. For this reason, we proposed a framework that employs an SSL method to accurately detect cancerous regions with a novel annotation method called Minimal Point-Based annotation, and then utilize the predicted results with an innovative hybrid loss to train a classification model for subtyping. The annotator only needs to mark a few points and label them are cancer or not in each WSI. Experiments on three significant subtypes of renal cell carcinoma (RCC) proved that the performance of the classifier trained with the Min-Point annotated dataset is comparable to a classifier trained with the segmentation annotated dataset for cancer region detection. And the subtyping model outperforms a model trained with only diagnostic labels by 12% in terms of f1-score for testing WSIs.