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Zishan Shu

dblp:374/0577 · DBLP profile ↗
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4ranked-venue papers
2as first author
4since 2021 · last 2026
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Artificial intelligence and machine learning · 3 · 2 first-author · 3 since 2021Graphics, computer vision, multimedia, augmented reality and games · 2 · 2 first-author · 2 since 2021Applied, interdisciplinary, general and emerging computing · 1 · 1 since 2021

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Artificial intelligence
2 papers
Deep learning architectures and training · 61% Graph learning · 23% Image recognition and object detection · 8%
Interdisciplinary, comprehensive, and emerging computing
2 papers
Bioinformatics and computational biology · 100%
Databases, data mining, and information retrieval
1 paper
Information retrieval · 100%

Topics — the 7 heaviest of 10, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Machine learning › Deep learning architectures and training › attention mechanism
efficient attention
1.012026
WaveFormer: Frequency-Time Decoupled Vision Modeling with Wave Equation · AAAI 2026
Machine learning › Deep learning architectures and training › transformer
vision transformer
1.012026
WaveFormer: Frequency-Time Decoupled Vision Modeling with Wave Equation · AAAI 2026
Machine learning › Graph learning › molecular representation learning › molecular graph learning
molecular graph representation learning
0.912025
MTPNet: Multi-Grained Target Perception for Unified Activity Cliff Prediction · IJCAI 2025
Bioinformatics and computational biology › molecular informatics
cheminformatics
0.912025
MTPNet: Multi-Grained Target Perception for Unified Activity Cliff Prediction · IJCAI 2025
Information retrieval
retrieval-augmented generation
0.912025
Rethinking Text-based Protein Understanding: Retrieval or LLM? · EMNLP 2025
Computer vision › Image recognition and object detection
image classification
0.312026
WaveFormer: Frequency-Time Decoupled Vision Modeling with Wave Equation · AAAI 2026
Computer vision › Segmentation and scene understanding
semantic segmentation
0.312026
WaveFormer: Frequency-Time Decoupled Vision Modeling with Wave Equation · AAAI 2026

Methods — techniques the papers use, named apart from their topics

retrieval augmentation · 1.7protein semantic guidance · 1.7graph neural network · 1.7fine-tuned LLM · 1.7conditional deep learning · 1.7wave equation · 1.0underdamped propagation · 1.0frequency-time decoupling · 1.0
YearPublicationVenuePosition
2026 WaveFormer: Frequency-Time Decoupled Vision Modeling with Wave Equation
abstract
Vision modeling has advanced rapidly with Transformers, whose attention mechanisms capture visual dependencies but lack a principled account of how semantic information propagates spatially. We revisit this problem from a wave-based perspective: feature maps are treated as spatial signals whose evolution over an internal propagation time (aligned with network depth) is governed by an underdamped wave equation. In this formulation, spatial frequency—from low-frequency global layout to high-frequency edges and textures—is modeled explicitly, and its interaction with propagation time is controlled rather than implicitly fixed. We derive a closed-form, frequency–time decoupled solution and implement it as the Wave Propagation Operator (WPO), a lightweight module that models global interactions in O(NlogN) time—far lower than attention. Building on WPO, we propose a family of WaveFormer models as drop-in replacements for standard ViTs and CNNs, achieving competitive accuracy across image classification, object detection, and semantic segmentation, while delivering up to 1.6× higher throughput and 30% fewer FLOPs than attention-based alternatives. Furthermore, our results demonstrate that wave propagation introduces a complementary modeling bias to heat-based methods, effectively capturing both global coherence and high-frequency details essential for rich visual semantics.
Zishan Shu, Juntong Wu, Xudong Liu 0001, Hongyu Zhang 0002, Chang Liu 0030, Youdong Mao, Jie Chen 0001
AAAI1
2025 Rethinking Text-based Protein Understanding: Retrieval or LLM?
abstract
In recent years, protein-text models have gained significant attention for their potential in protein generation and understanding.Current approaches focus on integrating protein-related knowledge into large language models through continued pretraining and multi-modal alignment, enabling simultaneous comprehension of textual descriptions and protein sequences.Through a thorough analysis of existing model architectures and text-based protein understanding benchmarks, we identify significant data leakage issues present in current benchmarks.Moreover, conventional metrics derived from natural language processing fail to assess the model's performance in this domain accurately.To address these limitations, we reorganize existing datasets and introduce a novel evaluation framework based on biological entities.Motivated by our observation, we propose a retrieval-enhanced method, which significantly outperforms fine-tuned LLMs for protein-totext generation and shows accuracy and efficiency in training-free scenarios.
Juntong Wu, Zijing Liu, He Cao, Zishan Shu, Yu Li 0006
EMNLP6
2025 MTPNet: Multi-Grained Target Perception for Unified Activity Cliff Prediction
abstract
Activity cliff prediction is a critical task in drug discovery and material design. Existing computational methods are limited to handling single binding targets, which restricts the applicability of these prediction models. In this paper, we present the Multi-Grained Target Perception network (MTPNet) to incorporate the prior knowledge of interactions between the molecules and their target proteins. Specifically, MTPNet is a unified framework for activity cliff prediction, which consists of two components: Macro-level Target Semantic (MTS) guidance and Micro-level Pocket Semantic (MPS) guidance. By this way, MTPNet dynamically optimizes molecular representations through multi-grained protein semantic conditions. To our knowledge, it is the first time to employ the receptor proteins as guiding information to effectively capture critical interaction details. Extensive experiments on 30 representative activity cliff datasets demonstrate that MTPNet significantly outperforms previous approaches, achieving an average RMSE improvement of 18.95% on top of several mainstream GNN architectures. Overall, MTPNet internalizes interaction patterns through conditional deep learning to achieve unified predictions of activity cliffs, helping to accelerate compound optimization and design. Codes are available at: https://github.com/ZishanShu/MTPNet.
Zishan Shu, Yufan Deng, Hongyu Zhang 0002, Zhiwei Nie, Jie Chen 0001
IJCAI1
2024 A Real-Time Forecast Model Based on Convolutional Neural Network and Attention Mechanism for Passenger Car Sales in 5G Environment
abstract
Achieving accurate forecasts of passenger car sales can help car companies set reasonable sales targets. However, the existing forecast models are plagued by the following problems. First, the models do not take into account the impact of the importance of features on the forecast ability. Secondly, single feature data cannot reflect the complex buying and selling logic of the passenger car market, and the previous models have not been able to explore the combination effects between different features well. Therefore, in this work, we propose a passenger car sales forecast model based on the convolutional neural network and attention mechanism (PCSFCA). Its innovation lies firstly in the use of the attention mechanism to calculate the importance of features, which enables the model to value important features and ignore unimportant ones. The second is the use of convolutional neural networks to extract the higher-order information of features, which facilitates the model to capture complex data distribution. Besides, we use the 5G network to build a cloud platform for real-time collection of passenger car sales records. The collected sales data are input to the model, and then the model can be learned in real-time. The comparison of experimental results with several benchmark models illustrates the effectiveness of the PCSFCA model.
Zishan Shu, Anke Li, Huanting Zhang
IEEE Trans. Intell. Transp. Syst.2