Comparative studies of de novo assembly tools for next-generation sequencing technologies. - Yong Lin; Jian Li 012; Hui Shen 007; Lei Zhang 041; Christopher J. Papasian; Hong-Wen Deng (Bioinform., 2011)

SWGDT: A sliding window-based genotype dependence testing tool for genome-wide susceptibility gene scan. - Yan Wen 003; Jingcan Hao; Xiong Guo; Xiao Xiao; Cuiyan Wu; Sen Wang; Tielin Yang; Hui Shen 007; Xiangding Chen; Lijun Tan; Qing Tian 004; Hong-Wen Deng; et al. (J. Biomed. Informatics, 2015)

Tissue-specific pathway association analysis using genome-wide association study summaries. - Wenyu Wang; Jingcan Hao; Shuyu Zheng; Qianrui Fan; Awen He; Yan Wen 003; Xiong Guo; Cuiyan Wu; Sen Wang; Tielin Yang; Hui Shen 007; Xiangding Chen; et al. (Bioinform., 2017)

EPS-LASSO: test for high-dimensional regression under extreme phenotype sampling of continuous traits. - Chao Xu 014; Jian Fang 001; Hui Shen 007; Yu-Ping Wang 002; Hong-Wen Deng (Bioinform., 2018)

PCA-based GRS analysis enhances the effectiveness for genetic correlation detection. - Yan Zhao; Yujie Ning; Feng Zhang 044; Miao Ding; Yan Wen 003; Liang Shi; Kunpeng Wang; Mengnan Lu; Jingyan Sun; Menglu Wu; Bolun Cheng; Mei Ma; et al. (Briefings Bioinform., 2019)

A novel computational strategy for DNA methylation imputation using mixture regression model (MRM). - Fangtang Yu; Chao Xu 014; Hong-Wen Deng; Hui Shen 007 (BMC Bioinform., 2020)

A generalized kernel machine approach to identify higher-order composite effects in multi-view datasets. - Md. Ashad Alam; Chuan Qiu; Hui Shen 007; Yu-Ping Wang 002; Hong-Wen Deng (CoRR, 2020)

A Deep Learning-Based Method for Automatic Segmentation of Proximal Femur from Quantitative Computed Tomography Images. - Chen Zhao 022; Joyce H. Keyak; Jinshan Tang; Tadashi S. Kaneko; Sundeep Khosla; Shreyasee Amin; Elizabeth J. Atkinson; Lan-Juan Zhao; Michael J. Serou; Chaoyang Zhang; Hui Shen 007; Hong-Wen Deng; et al. (CoRR, 2020)

A generalized kernel machine approach to identify higher-order composite effects in multi-view datasets, with application to adolescent brain development and osteoporosis. - Md. Ashad Alam; Chuan Qiu; Hui Shen 007; Yu-Ping Wang 002; Hong-Wen Deng (J. Biomed. Informatics, 2021)

A robust kernel machine regression towards biomarker selection in multi-omics datasets of osteoporosis for drug discovery. - Md. Ashad Alam; Hui Shen 007; Hong-Wen Deng (CoRR, 2022)

Multi-view information fusion using multi-view variational autoencoders to predict proximal femoral strength. - Chen Zhao 022; Joyce H. Keyak; Xuewei Cao; Qiuying Sha; Li Wu; Zhe Luo; Lanjuan Zhao; Qing Tian 004; Chuan Qiu; Ray Su; Hui Shen 007; Hong-Wen Deng; et al. (CoRR, 2022)

An autoencoder-based deep learning method for genotype imputation. - Meng Song; Jonathan Greenbaum; Joseph Luttrell IV; Weihua Zhou; Chong Wu; Zhe Luo; Chuan Qiu; Lan Juan Zhao; Kuan-Jui Su; Qing Tian 004; Hui Shen 007; Huixiao Hong; et al. (Frontiers Artif. Intell., 2022)

ImageNomer: developing an fMRI and omics visualization tool to detect racial bias in functional connectivity. - Anton Orlichenko; Grant Daly; Anqi Liu; Hui Shen 007; Hong-Wen Deng; Yu-Ping Wang 002 (CoRR, 2023)

CLCLSA: Cross-omics Linked embedding with Contrastive Learning and Self Attention for multi-omics integration with incomplete multi-omics data. - Chen Zhao 022; Anqi Liu; Xiao Zhang; Xuewei Cao; Zhengming Ding; Qiuying Sha; Hui Shen 007; Hong-Wen Deng; Weihua Zhou (CoRR, 2023)

Multi-View Variational Autoencoder for Missing Value Imputation in Untargeted Metabolomics. - Chen Zhao 022; Kuan-Jui Su; Chong Wu; Xuewei Cao; Qiuying Sha; Wu Li; Zhe Luo; Tian Qin; Chuan Qiu; Lan Juan Zhao; Anqi Liu; Lindong Jiang; et al. (CoRR, 2023)

Multi-scale variational autoencoder for imputation of missing values in untargeted metabolomics using whole-genome sequencing data. - Chen Zhao 022; Kuan-Jui Su; Chong Wu; Xuewei Cao; Qiuying Sha; Wu Li; Zhe Luo; Qing Tian 004; Chuan Qiu; Lan Juan Zhao; Anqi Liu; Lindong Jiang; et al. (Comput. Biol. Medicine, 2024)

A Staged Approach using Machine Learning and Uncertainty Quantification to Predict the Risk of Hip Fracture. - Anjum Shaik; Kristoffer Larsen; Nancy E. Lane; Chen Zhao 022; Kuan-Jui Su; Joyce H. Keyak; Qing Tian 004; Qiuying Sha; Hui Shen 007; Hong-Wen Deng; Weihua Zhou (CoRR, 2024)

SGUQ: Staged Graph Convolution Neural Network for Alzheimer's Disease Diagnosis using Multi-Omics Data. - Liang Tao; Yixin Xie; Jeffrey D. Deng; Hui Shen 007; Hong-Wen Deng; Weihua Zhou; Chen Zhao 022 (CoRR, 2024)

Developing and comparing deep learning and machine learning algorithms for osteoporosis risk prediction. - Chuan Qiu; Kuanjui Su; Zhe Luo; Qing Tian 004; Lanjuan Zhao; Li Wu; Hong-Wen Deng; Hui Shen 007 (Frontiers Artif. Intell., 2024)

CLCLSA: Cross-omics linked embedding with contrastive learning and self attention for integration with incomplete multi-omics data. - Chen Zhao 022; Anqi Liu; Xiao Zhang; Xuewei Cao; Zhengming Ding; Qiuying Sha; Hui Shen 007; Hong-Wen Deng; Weihua Zhou (Comput. Biol. Medicine, 2024)

ICGM-FRAX: Iterative Cross Graph Matching for Hip Fracture Risk Assessment using Dual-energy X-ray Absorptiometry Images. - Chen Zhao 022; Anjum Shaik; Joyce H. Keyak; Nancy E. Lane; Jeffrey D. Deng; Kuan-Jui Su; Qiuying Sha; Hui Shen 007; Hong-Wen Deng; Weihua Zhou (CoRR, 2025)

An Advanced Two-Stage Model with High Sensitivity and Generalizability for Prediction of Hip Fracture Risk Using Multiple Datasets. - Shuo Sun; Meiling Zhou; Chen Zhao 022; Joyce H. Keyak; Nancy E. Lane; Jeffrey D. Deng; Kuan-Jui Su; Hui Shen 007; Hong-Wen Deng; Kui Zhang; Weihua Zhou (CoRR, 2025)

PF-DAformer: Proximal Femur Segmentation via Domain Adaptive Transformer for Dual-Center QCT. - Rochak Dhakal; Chen Zhao 022; Zixin Shi; Joyce H. Keyak; Tadashi S. Kaneko; Kuan-Jui Su; Hui Shen 007; Hong-Wen Deng; Weihua Zhou (CoRR, 2025)