Haowen Chen

Dr. Haowen Chen


Research Focus & Metrics

Academic Career Length

10Years (2017-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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11 April 2025 in Proceedings of the AAAI Conference on Artificial Intelligence
Verified
Journal Article
Open access
PDF file
WAWei Ai
Wei Ai
FZFuchen Zhang
Fuchen Zhang
YSYuntao Shou
Yuntao Shou
TMTao Meng
Tao Meng
HCHaowen Chen
Haowen Chen
Keqin LiKeqin Li
Keqin Li
Efficiently capturing consistent and complementary semantic features in context is crucial for Multimodal Emotion Recognition in Conversations (MERC). However, limited by the over-smoothing or low-pass filtering characteristics of spatial graph neural networks, are insufficient to accurately capture the long-distance consistency low-frequency information and complementarity high-frequency information of the utterances. To this end, this paper revisits the task of MERC from the perspective of the graph spectrum and proposes a Graph-Spectrum-based Multimodal Consistency and Complementary collaborative learning framework GS-MCC. First, GS-MCC uses a sliding window to construct a multimodal interaction graph to model conversational relationships and designs efficient Fourier graph operators (FGO) to extract long-distance high-frequency and low-frequency information, respectively. FGO can be stacked in multiple layers, which can effectively alleviate the over-smoothing problem. Then, GS-MCC uses contrastive learning to construct self-supervised signals that reflect complementarity and consistent semantic collaboration with high and low-frequency signals, thereby improving the ability of high and low-frequency information to reflect genuine emotions. Finally, GS-MCC inputs the coordinated high and low-frequency information into the MLP network and softmax function for emotion prediction. Extensive experiments have proven the superiority of the GS-MCC architecture proposed in this paper on two benchmark data sets.

22 November 2023 in Briefings in Bioinformatics
Verified
Journal Article
Open access
PDF file
YSYansen Su
Yansen Su
ZHZhiyang Hu
Zhiyang Hu
FWFei Wang
Fei Wang
YBYannan Bin
Yannan Bin
CZChunhou Zheng
Chunhou Zheng
XZXiangxiang Zeng
Xiangxiang Zeng
Prediction of drug–target interactions (DTIs) is essential in medicine field, since it benefits the identification of molecular structures potentially interacting with drugs and facilitates the discovery and reposition of drugs. Recently, much attention has been attracted to network representation learning to learn rich information from heterogeneous data. Although network representation learning algorithms have achieved success in predicting DTI, several manually designed meta-graphs limit the capability of extracting complex semantic information. To address the problem, we introduce an adaptive meta-graph-based method, termed AMGDTI, for DTI prediction. In the proposed AMGDTI, the semantic information is automatically aggregated from a heterogeneous network by training an adaptive meta-graph, thereby achieving efficient information integration without requiring domain knowledge. The effectiveness of the proposed AMGDTI is verified on two benchmark datasets. Experimental results demonstrate that the AMGDTI method overall outperforms eight state-of-the-art methods in predicting DTI and achieves the accurate identification of novel DTIs. It is also verified that the adaptive meta-graph exhibits flexibility and effectively captures complex fine-grained semantic information, enabling the learning of intricate heterogeneous network topology and the inference of potential drug–target relationship.

28 December 2023 in IEEE Journal of Biomedical and Health Informatics
Verified
Journal Article
Closed access
XZXiang Zhang
Xiang Zhang
HXHongxin Xiang
Hongxin Xiang
XYXixi Yang
Xixi Yang
JDJingxin Dong
Jingxin Dong
XFXiangzheng Fu
Xiangzheng Fu
Keqin LiKeqin Li
Keqin Li
The prediction of molecular properties remains a challenging task in the field of drug design and development. Recently, there has been a growing interest in the analysis of biological images. Molecular images, as a novel representation, have proven to be competitive, yet they lack explicit information and detailed semantic richness. Conversely, semantic information in SMILES sequences is explicit but lacks spatial structural details. Therefore, in this study, we focus on and explore the relationship between these two types of representations, proposing a novel multimodal architecture named ISMol. ISMol relies on a cross-attention mechanism to extract information representations of molecules from both images and SMILES strings, thereby predicting molecular properties. Evaluation results on 14 small molecule ADMET datasets indicate that ISMol outperforms machine learning (ML) and deep learning (DL) models based on single-modal representations. In addition, we analyze our method through a large number of experiments to test the superiority, interpretability and generalizability of the method. In summary, ISMol offers a powerful deep learning toolbox for drug discovery in a variety of molecular properties.

3 March 2022 in IEEE Internet of Things Journal
Verified
Journal Article
Closed access
DTDeyan Tang
Deyan Tang
SZSiwang Zhou
Siwang Zhou
HJHongbo Jiang
Hongbo Jiang
HCHaowen Chen
Haowen Chen
YLYonghe Liu
Yonghe Liu
Privacy concerns over face recognition systems have attracted extensive attention in various fields. For gender privacy-preserving work, there are two key challenges: 1) privacy , i.e., confusing gender classifiers and 2) utility , i.e., maintaining its face verification performance. To address both issues, this article develops a novel gender-adversarial network, referred to as Gender-AN, to impart gender privacy to face images. Gender-AN employs an attribute-independent encoder–decoder GAN-based network to perturb the input face image, training with the assistance of the proper facial attributes. The perturbed image is then able to obfuscate gender classifiers while maintaining identity discriminability. To optimize the generator, a multitask-based loss function is utilized, which includes attribute manipulation loss, face matcher loss, adversarial loss, and reconstruction loss functions. This optimization facilitates our model to achieve the generalization, verification preserve, and natural appearance, simultaneously. Extensive experiments confirm the effectiveness of the proposed model in enhancing gender privacy and preserving face verification utility.

6 April 2024 in Journal of Theoretical Biology
Verified
Journal Article
Closed access
XLXiong Li
Xiong Li
XFXuan Feng
Xuan Feng
JZJuan Zhou
Juan Zhou
YLYuchao Luo
Yuchao Luo
XCXiao Chen
Xiao Chen
GLGuoliang Luo
Guoliang Luo

31 August 2025 in Briefings in Bioinformatics
Verified
Journal Article
Open access
XFXiangzheng Fu
Xiangzheng Fu
LPLi Peng
Li Peng
HCHaowen Chen
Haowen Chen
MRMingqiang Rong
Mingqiang Rong
YCYifan Chen
Yifan Chen
ALAiping Lu
Aiping Lu
T-cell receptor (TCR)-epitope binding prediction is critical for immunotherapies but remains challenged by sparse interaction networks and severe class imbalance in training data. Current graph neural network (GNN) approaches for predicting TCR-epitope binding (TEB) fail to address two key limitations: over-smoothing during message propagation in sparse TCR-epitope graphs and biased predictions toward dominant epitope-TCR pairs. Here, we present GRAPE (Graph-Regularized Attentive Protein Embeddings), a framework unifying spectral graph regularization and imbalance-aware learning. GRAPE first leverages protein language models (ESM-2) to generate evolutionary-informed TCR/epitope embeddings, constructing a topology-aware interaction graph. To mitigate over-smoothing, we introduce spectral graph regularization, explicitly constraining node feature smoothness to preserve discriminative patterns in sparse neighborhoods. Simultaneously, a dynamic edge reweighting module prioritizes unobserved TCR-epitope edges during graph propagation, coupled with a differentiable area under the ROC curve-maximization objective that directly optimizes for imbalance resilience. Extensive benchmarking on public datasets demonstrates that GRAPE significantly outperforms state-of-the-art methods in TEB prediction. This work establishes GRAPE as a robust framework for elucidating TCR-epitope interactions, with broad applications in immunology research and therapeutic design.