Publications by authors named "Weichuan Yu"

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PIPI-C: A combinatorial optimization framework for identifying post-translational modification hot-spots in mass spectrometry data.
Shengzhi Lai, Shuaijian Dai, Peize Zhao, Chen Zhou, Ning Li, Weichuan Yu

Mol Cell Proteomics· December 2025

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Direct inference of haplotypes from sequencing data.
Zhen Zhang, Bencong Zhu, Yongyi Luo, Jiandong Shi, Sheng Lian, Jingyu Hao, Weichuan Yu

Bioinform Adv· September 2025

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Cytosolic WPRa4 and Plastoskeletal PMI4 Proteins Mediate Touch Response in a Model Organism Arabidopsis.
Kebin Wu, Nan Yang, Jia Ren, Shichang Liu, Kai Wang, Yuxing An, Fuyun Tian, Weichuan Yu

Mol Cell Proteomics· July 2025

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epLSAP-Align: a non-sequential protein structural alignment solver with entropy-regularized partial linear sum assignment problem formulation.
Xuechen Zhang, Zhuoyang Chen, Junyu Li, Qiong Luo, Longjun Wu, Weichuan Yu

Bioinformatics· June 2025

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Time-series atlases of the rat brain after middle cerebral artery occlusion using FDG-PET images.
Chenrui Li, Wuxian He, Xuechen Zhang, Hongtu Tang, Jia Li, Weichuan Yu

Comput Biol Med· May 2025

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Using the coefficient of determination to identify injury regions after stroke in pre-clinical FDG-PET images.
Wuxian He, Hongtu Tang, Jia Li, Xiaoyan Shen, Xuechen Zhang, Weichuan Yu

Comput Biol Med· January 2025

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BVSim: A benchmarking variation simulator mimicking human variation spectrum.
Yongyi Luo, Zhen Zhang, Shu Wang, Jiandong Shi, Jingyu Hao, Weichuan Yu

Gigascience· January 2025

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DCES-PA: Deformation-controllable elastic shape model for 3D bone proliferation analysis using hand HR-pQCT images.
Xuechen Zhang, Isaac Cheng, Yingzhao Jin, Jiandong Shi, Chenrui Li, Weichuan Yu

Comput Biol Med· June 2024

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PIPI2: Sensitive Tag-Based Database Search to Identify Peptides with Multiple Post-translational Modifications.
Shengzhi Lai, Peize Zhao, Chen Zhou, Ning Li, Weichuan Yu

J Proteome Res· June 2024

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Circulating metabolomic markers linking diabetic kidney disease and incident cardiovascular disease in type 2 diabetes: analyses from the Hong Kong Diabetes Biobank.
Qiao Jin, Eric S H Lau, Andrea O Luk, Claudia H T Tam, Risa Ozaki, Yuk Lun Cheng, Weichuan Yu, Yu Huang

Diabetologia· May 2024

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The Quantitative Biotinylproteomics Studies Reveal a WInd-Related Kinase 1 (Raf-Like Kinase 36) Functioning as an Early Signaling Component in Wind-Induced Thigmomorphogenesis and Gravitropism.
Nan Yang, Jia Ren, Shuaijian Dai, Kai Wang, Manhin Leung, Yuxing An, Weichuan Yu

Mol Cell Proteomics· March 2024

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ECL 3.0: a sensitive peptide identification tool for cross-linking mass spectrometry data analysis.
Chen Zhou, Shuaijian Dai, Shengzhi Lai, Yuanqiao Lin, Xuechen Zhang, Weichuan Yu

BMC Bioinformatics· September 2023

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Automatic 3D joint erosion detection for the diagnosis and monitoring of rheumatoid arthritis using hand HR-pQCT images.
Xuechen Zhang, Isaac Cheng, Shaojun Liu, Chenrui Li, Jing-Hao Xue, Weichuan Yu

Comput Med Imaging Graph· June 2023

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Identification of a Common Variant for Coronary Heart Disease at PDE1A Contributes to Individualized Treatment Goals and Risk Stratification of Cardiovascular Complications in Chinese Patients With Type 2 Diabetes.
Claudia H T Tam, Cadmon K P Lim, Andrea O Y Luk, Mai Shi, Hoi Man Cheung, Yuk Lun Cheng, Weichuan Yu, Yu Huang

Diabetes Care· June 2023

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Capturing the hierarchically assorted modules of protein-protein interactions in the organized nucleome.
Shuaijian Dai, Shichang Liu, Chen Zhou, Fengchao Yu, Guang Zhu, Weichuan Yu

Mol Plant· May 2023

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Exhaustive Cross-Linking Search with Protein Feedback.
Chen Zhou, Shuaijian Dai, Yuanqiao Lin, Sheng Lian, Xiaodan Fan, Weichuan Yu

J Proteome Res· January 2023

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High-density lipoprotein subclasses and cardiovascular disease and mortality in type 2 diabetes: analysis from the Hong Kong Diabetes Biobank.
Qiao Jin, Eric S H Lau, Andrea O Luk, Claudia H T Tam, Risa Ozaki, Yuk Lun Cheng, Weichuan Yu, Yu Huang

Cardiovasc Diabetol· December 2022

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Feature-based Quality Assessment of Middle Cerebral Artery Occlusion Using 18F-Fluorodeoxyglucose Positron Emission Tomography.
Wuxian He, Hongtu Tang, Jia Li, Chenze Hou, Xiaoyan Shen, Weichuan Yu

Neurosci Bull· September 2022

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Detection of Structural Variations and Fusion Genes in Breast Cancer Samples Using Third-Generation Sequencing.
Taobo Hu, Jingjing Li, Mengping Long, Jinbo Wu, Zhen Zhang, Xueyu Guo, Daoli Yuan, Guoliang Yu, Weichuan Yu

Front Cell Dev Biol· April 2022

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Understanding the Limit of Open Search in the Identification of Peptides With Post-translational Modifications - A Simulation-Based Study.
Jiaan Dai, Fengchao Yu, Chen Zhou, Weichuan Yu

IEEE/ACM Trans Comput Biol Bioinform· January 2022

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Isotopically Dimethyl Labeling-Based Quantitative Proteomic Analysis of Phosphoproteomes of Soybean Cultivars.
Atieh Moradi, Shuaijian Dai, Emily Oi Ying Wong, Guang Zhu, Fengchao Yu, Weichuan Yu

Biomolecules· August 2021

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Development of genome-wide polygenic risk scores for lipid traits and clinical applications for dyslipidemia, subclinical atherosclerosis, and diabetes cardiovascular complications among East Asians.
Claudia H T Tam, Cadmon K P Lim, Andrea O Y Luk, Alex C W Ng, Heung-Man Lee, Yuk-Lun Cheng, Weichuan Yu, Yu Huang

Genome Med· February 2021

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Data imbalance in CRISPR off-target prediction.
Yuli Gao, Guohui Chuai, Weichuan Yu, Shen Qu, Qi Liu

Brief Bioinform· July 2020

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Region-based interaction detection in genome-wide case-control studies.
Sen Zhang, Wei Jiang, Ronald Cw Ma, Weichuan Yu

BMC Med Genomics· December 2019

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Xolik: finding cross-linked peptides with maximum paired scores in linear time.
Jiaan Dai, Wei Jiang, Fengchao Yu, Weichuan Yu

Bioinformatics· January 2019

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