Shirley W. I. Siu

According to our database, Shirley W. I. Siu authored at least 32 papers between 2004 and 2026.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2026

Multi-MoleScale: a multi-scale approach for molecular property prediction with graph contrastive and sequence learning.

Xinpo Lou, Jianxiu Cai, Shirley W. I. Siu

J. Cheminformatics, December, 2026

Enzyformer: a two-stage pretrained model for enzymatic retrosynthesis.

Tiantao Liu, Jiangcheng Xu, Xinke Zhan, Shaolong Lin, Shirley W. I. Siu

J. Cheminformatics, December, 2026

BERT-T6: Toward High-Accuracy T6SS Bacterial Toxin Identification Using a Protein Language Model.

Xianwei Mo, Jianxiu Cai, Shirley W. I. Siu

J. Chem. Inf. Model., 2026

MambaTransDTA: A Hybrid Mamba-Transformer Architecture for Accurate Drug-Target Binding Affinity Prediction.

Xinpo Lou, Jianxiu Cai, Qidong Liu, Shirley W. I. Siu

J. Chem. Inf. Model., 2026

MEGCAM: MEta-Graph and Causal Attention Method for Drug Repurposing on Heterogeneous Drug-Target-Disease Knowledge Network.

Dongqi Liu, Miaoting Hu, Xinke Zhan, Shirley W. I. Siu

J. Chem. Inf. Model., 2026

CrossToGene: A bidirectional cross-modality interaction framework for predicting spatial gene expression from histopathological images.

Xiangyu Ma, Xinke Zhan, Yutao Hu, Shirley W. I. Siu

Eng. Appl. Artif. Intell., 2026

2025

BERT-AmPEP60: A BERT-Based Transfer Learning Approach to Predict the Minimum Inhibitory Concentrations of Antimicrobial Peptides for <i>Escherichia coli</i> and <i>Staphylococcus aureus</i>.

Jianxiu Cai, Jielu Yan, Chonwai Un, Yapeng Wang, François-Xavier Campbell-Valois, Shirley W. I. Siu

J. Chem. Inf. Model., 2025

CALM-AcPEP: Predicting Anticancer Peptides Using Cross-Attention and Pre-Trained Language Model.

Xinke Zhan, Tiantao Liu, Pratiti Bhadra, Yu-An Huang, Zhuhong You, Shirley W. I. Siu

Proceedings of the Advanced Intelligent Computing Technology and Applications, 2025

xLSTM-AmPEP60: An xLSTM Model for the Minimum Inhibitory Concentrations Prediction of Antimicrobial Peptides.

Jianxiu Cai, Xinpo Lou, Jielu Yan, Joel P. Arrais, Yapeng Wang, Shirley W. I. Siu

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2025

2024

Identification of Anticancer Peptides from the Genome of <i>Candida albicans</i>: in Silico Screening, in Vitro and in Vivo Validations.

Hong-Hin Cheong, Weimin Zuo, Jiarui Chen, Chonwai Un, Yain-Whar Si, Koon Ho Wong, Hang Fai Kwok, Shirley W. I. Siu

J. Chem. Inf. Model., 2024

Editorial: Machine learning approaches to antimicrobials: discovery and resistance.

Shira L. Broschat, Shirley W. I. Siu, Cesar de la Fuente-Nunez

Frontiers Bioinform., 2024

Enhancing Diagnostic Precision in Gastric Bleeding through Automated Lesion Segmentation: A Deep DuS-KFCM Approach.

Xian-Xian Liu, Mingkun Xu, Yuanyuan Wei, Huafeng Qin, Qun Song, Simon Fong, Feng Tien, Wei Luo, Juntao Gao, Zhihua Zhang, Shirley W. I. Siu

CoRR, 2024

2023

Attentive recurrent adversarial domain adaptation with Top-k pseudo-labeling for time series classification.

Qi-Qiao He, Shirley Weng In Siu, Yain-Whar Si

Appl. Intell., June, 2023

Instance-based deep transfer learning with attention for stock movement prediction.

Qi-Qiao He, Shirley Weng In Siu, Yain-Whar Si

Appl. Intell., March, 2023

2022

Multi-Branch-CNN: Classification of ion channel interacting peptides using multi-branch convolutional neural network.

Jielu Yan, Bob Zhang, Mingliang Zhou, Hang Fai Kwok, Shirley W. I. Siu

Comput. Biol. Medicine, 2022

2021

xDeep-AcPEP: Deep Learning Method for Anticancer Peptide Activity Prediction Based on Convolutional Neural Network and Multitask Learning.

Jiarui Chen, Hong-Hin Cheong, Shirley W. I. Siu

J. Chem. Inf. Model., 2021

LigTMap: ligand and structure-based target identification and activity prediction for small molecular compounds.

Faraz Shaikh, Hio Kuan Tai, Nirali Desai, Shirley W. I. Siu

J. Cheminformatics, 2021

Chemical toxicity prediction based on semi-supervised learning and graph convolutional neural network.

Jiarui Chen, Yain-Whar Si, Chonwai Un, Shirley W. I. Siu

J. Cheminformatics, 2021

2020

White learning methodology: A case study of cancer-related disease factors analysis in real-time PACS environment.

Tengyue Li, Simon Fong, Shirley W. I. Siu, Xin-She Yang, Liansheng Liu, Sabah Mohammed

Comput. Methods Programs Biomed., 2020

Study of Data Imbalanced Problem in Protein-peptide Binding Prediction.

Lu Gao, Shirley W. I. Siu

Proceedings of the 12th International Conference on Bioinformatics and Biomedical Technology, 2020

Evaluating Variants of Firefly Algorithm for Ligand Pose Prediction in Protein-ligand Docking Program.

Meng Chi Ao, Shirley W. I. Siu

Proceedings of the 12th International Conference on Bioinformatics and Biomedical Technology, 2020

BESTox: A Convolutional Neural Network Regression Model Based on Binary-Encoded SMILES for Acute Oral Toxicity Prediction of Chemical Compounds.

Jiarui Chen, Hong-Hin Cheong, Shirley Weng In Siu

Proceedings of the Algorithms for Computational Biology, 2020

2018

Adaptive Incremental Genetic Algorithm for Task Scheduling in Cloud Environments.

Kairong Duan, Simon Fong, Shirley W. I. Siu, Wei Song, Steven Sheng-Uei Guan

Symmetry, 2018

Chaos-embedded particle swarm optimization approach for protein-ligand docking and virtual screening.

Hio Kuan Tai, Siti Azma Jusoh, Shirley W. I. Siu

J. Cheminformatics, 2018

2017

TMDIM: an improved algorithm for the structure prediction of transmembrane domains of bitopic dimers.

Han Cao, Marcus C. K. Ng, Siti Azma Jusoh, Hio Kuan Tai, Shirley W. I. Siu

J. Comput. Aided Mol. Des., 2017

2016

ProtPOS: a python package for the prediction of protein preferred orientation on a surface.

Jimmy C. F. Ngai, Pui-In Mak, Shirley W. I. Siu

Bioinform., 2016

Improving the efficiency of PSOVina for protein-ligand docking by two-stage local search.

Hio Kuan Tai, Hang Lin, Shirley W. I. Siu

Proceedings of the IEEE Congress on Evolutionary Computation, 2016

2015

PSOVina: The hybrid particle swarm optimization algorithm for protein-ligand docking.

Marcus C. K. Ng, Simon Fong, Shirley W. I. Siu

J. Bioinform. Comput. Biol., 2015

Predicting favorable protein docking poses on a solid surface by particle swarm optimization.

Jimmy C. F. Ngai, Pui-In Mak, Shirley W. I. Siu

Proceedings of the IEEE Congress on Evolutionary Computation, 2015

2013

Comparison of Cutoff Strategies for Geometrical Features in Machine Learning-Based Scoring Functions.

Shirley W. I. Siu, Thomas K. F. Wong, Simon Fong

Proceedings of the Advanced Data Mining and Applications - 9th International Conference, 2013

2006

DynaPred: A structure and sequence based method for the prediction of MHC class I binding peptide sequences and conformations.

Iris Antes, Shirley W. I. Siu, Thomas Lengauer

Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006

2004

Smart Card-Based Irregular Access Patterns Detection System.

António Leong, Simon Fong, Shirley W. I. Siu

Proceedings of the 2004 IEEE International Conference on e-Technology, 2004