Hong-Wen Deng

75 papers Journal 66Unranked 9
YearRankTypeTitle / Venue / Authors
2026 J jnl
Improving Generalizability of Hip Fracture Risk Prediction via Domain Adaptation Across Multiple Cohorts.
CoRR
Shuo Sun, Meiling Zhou, Chen Zhao, Joyce H. Keyak, Nancy E. Lane, Jeffrey D. Deng, Kuan-Jui Su, Hui Shen, Hong-Wen Deng, Kui Zhang, Weihua Zhou
2025 J jnl
A Privacy-Preserving Domain Adversarial Federated learning for multi-site brain functional connectivity analysis.
CoRR
Yipu Zhang, Likai Wang, Kuan-Jui Su, Aiying Zhang, Hao Zhu, Xiaowen Liu, Hui Shen, Vince D. Calhoun, Yuping Wang, Hong-Wen Deng
2025 J jnl
An Advanced Two-Stage Model with High Sensitivity and Generalizability for Prediction of Hip Fracture Risk Using Multiple Datasets.
CoRR
Shuo Sun, Meiling Zhou, Chen Zhao, Joyce H. Keyak, Nancy E. Lane, Jeffrey D. Deng, Kuan-Jui Su, Hui Shen, Hong-Wen Deng, Kui Zhang, Weihua Zhou
2025 J jnl
ICGM-FRAX: Iterative Cross Graph Matching for Hip Fracture Risk Assessment using Dual-energy X-ray Absorptiometry Images.
CoRR
Chen Zhao, Anjum Shaik, Joyce H. Keyak, Nancy E. Lane, Jeffrey D. Deng, Kuan-Jui Su, Qiuying Sha, Hui Shen, Hong-Wen Deng, Weihua Zhou
2025 J jnl
PF-DAformer: Proximal Femur Segmentation via Domain Adaptive Transformer for Dual-Center QCT.
CoRR
Rochak Dhakal, Chen Zhao, Zixin Shi, Joyce H. Keyak, Tadashi S. Kaneko, Kuan-Jui Su, Hui Shen, Hong-Wen Deng, Weihua Zhou
2025 J jnl
Personalized Federated Dictionary Learning for Modeling Heterogeneity in Multi-site fMRI Data.
CoRR
Yipu Zhang, Chengshuo Zhang, Ziyu Zhou, Gang Qu, Hao Zheng, Yuping Wang, Hui Shen, Hong-Wen Deng
2024 J jnl
A Demographic-Conditioned Variational Autoencoder for fMRI Distribution Sampling and Removal of Confounds.
CoRR
Anton Orlichenko, Gang Qu, Ziyu Zhou, Anqi Liu, Hong-Wen Deng, Zhengming Ding, Julia M. Stephen, Tony W. Wilson, Vince D. Calhoun, Yu-Ping Wang
2024 J jnl
A Staged Approach using Machine Learning and Uncertainty Quantification to Predict the Risk of Hip Fracture.
CoRR
Anjum Shaik, Kristoffer Larsen, Nancy E. Lane, Chen Zhao, Kuan-Jui Su, Joyce H. Keyak, Qing Tian, Qiuying Sha, Hui Shen, Hong-Wen Deng, Weihua Zhou
2024 J jnl
CLCLSA: Cross-omics linked embedding with contrastive learning and self attention for integration with incomplete multi-omics data.
Comput. Biol. Medicine
Chen Zhao, Anqi Liu, Xiao Zhang, Xuewei Cao, Zhengming Ding, Qiuying Sha, Hui Shen, Hong-Wen Deng, Weihua Zhou
2024 J jnl
Developing and comparing deep learning and machine learning algorithms for osteoporosis risk prediction.
Frontiers Artif. Intell.
Chuan Qiu, Kuanjui Su, Zhe Luo, Qing Tian, Lanjuan Zhao, Li Wu, Hong-Wen Deng, Hui Shen
2024 J jnl
Multi-scale variational autoencoder for imputation of missing values in untargeted metabolomics using whole-genome sequencing data.
Comput. Biol. Medicine
Chen Zhao, Kuan-Jui Su, Chong Wu, Xuewei Cao, Qiuying Sha, Wu Li, Zhe Luo, Qing Tian, Chuan Qiu, Lan Juan Zhao, Anqi Liu, Lindong Jiang, Xiao Zhang, Hui Shen, Weihua Zhou, Hong-Wen Deng
2024 J jnl
SGUQ: Staged Graph Convolution Neural Network for Alzheimer's Disease Diagnosis using Multi-Omics Data.
CoRR
Liang Tao, Yixin Xie, Jeffrey D. Deng, Hui Shen, Hong-Wen Deng, Weihua Zhou, Chen Zhao
2023 J jnl
CLCLSA: Cross-omics Linked embedding with Contrastive Learning and Self Attention for multi-omics integration with incomplete multi-omics data.
CoRR
Chen Zhao, Anqi Liu, Xiao Zhang, Xuewei Cao, Zhengming Ding, Qiuying Sha, Hui Shen, Hong-Wen Deng, Weihua Zhou
2023 J jnl
ImageNomer: developing an fMRI and omics visualization tool to detect racial bias in functional connectivity.
CoRR
Anton Orlichenko, Grant Daly, Anqi Liu, Hui Shen, Hong-Wen Deng, Yu-Ping Wang
2023 J jnl
Multi-View Variational Autoencoder for Missing Value Imputation in Untargeted Metabolomics.
CoRR
Chen Zhao, Kuan-Jui Su, Chong Wu, Xuewei Cao, Qiuying Sha, Wu Li, Zhe Luo, Tian Qin, Chuan Qiu, Lan Juan Zhao, Anqi Liu, Lindong Jiang, Xiao Zhang, Hui Shen, Weihua Zhou, Hong-Wen Deng
2023 J jnl
ST-V-Net: incorporating shape prior into convolutional neural networks for proximal femur segmentation.
Complex Intell. Syst.
Chen Zhao, 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, Hong-Wen Deng, Weihua Zhou
2022 J jnl
A deep learning-based approach to automatic proximal femur segmentation in quantitative CT images.
Medical Biol. Eng. Comput.
Yu Deng, Ling Wang, Chen Zhao, Shaojie Tang, Xiaoguang Cheng, Hong-Wen Deng, Weihua Zhou
2022 J jnl
A robust kernel machine regression towards biomarker selection in multi-omics datasets of osteoporosis for drug discovery.
CoRR
Md. Ashad Alam, Hui Shen, Hong-Wen Deng
2022 J jnl
An autoencoder-based deep learning method for genotype imputation.
Frontiers Artif. Intell.
Meng Song, Jonathan Greenbaum, Joseph Luttrell IV, Weihua Zhou, Chong Wu, Zhe Luo, Chuan Qiu, Lan Juan Zhao, Kuan-Jui Su, Qing Tian, Hui Shen, Huixiao Hong, Ping Gong, Xinghua Shi, Hong-Wen Deng, Chaoyang Zhang
2022 J jnl
BERT6mA: prediction of DNA N6-methyladenine site using deep learning-based approaches.
Briefings Bioinform.
Sho Tsukiyama, Md. Mehedi Hasan, Hong-Wen Deng, Hiroyuki Kurata
2022 J jnl
DeepDNAbP: A deep learning-based hybrid approach to improve the identification of deoxyribonucleic acid-binding proteins.
Comput. Biol. Medicine
Md. Faruk Hosen, S. M. Hasan Mahmud, Kawsar Ahmed, Wenyu Chen, Mohammad Ali Moni, Hong-Wen Deng, Watshara Shoombuatong, Md. Mehedi Hasan
2022 J jnl
Effective Cancer Subtype and Stage Prediction via Dropfeature-DNNs.
IEEE ACM Trans. Comput. Biol. Bioinform.
Zhong Chen, Wensheng Zhang, Hong-Wen Deng, Kun Zhang
2022 J jnl
Hip Fracture Prediction using the First Principal Component Derived from FEA-Computed Fracture Loads.
CoRR
Xuewei Cao, Joyce H. Keyak, Sigurdur Sigurdsson, Chen Zhao, Weihua Zhou, Anqi Liu, Thomas Lang, Hong-Wen Deng, Vilmundur Gudnason, Qiuying Sha
2022 J jnl
Multi-view information fusion using multi-view variational autoencoders to predict proximal femoral strength.
CoRR
Chen Zhao, Joyce H. Keyak, Xuewei Cao, Qiuying Sha, Li Wu, Zhe Luo, Lanjuan Zhao, Qing Tian, Chuan Qiu, Ray Su, Hui Shen, Hong-Wen Deng, Weihua Zhou
2021 J jnl
A Deep Learning-Based Approach to Extracting Periosteal and Endosteal Contours of Proximal Femur in Quantitative CT Images.
CoRR
Yu Deng, Ling Wang, Chen Zhao, Shaojie Tang, Xiaoguang Cheng, Hong-Wen Deng, Weihua Zhou
2021 J jnl
A Joint Analysis of Multi-Paradigm fMRI Data With Its Application to Cognitive Study.
IEEE Trans. Medical Imaging
Yuntong Bai, Yun Gong, Jianchao Bai, Jingyu Liu, Hong-Wen Deng, Vince D. Calhoun, Yu-Ping Wang
2021 J jnl
A gene-level methylome-wide association analysis identifies novel Alzheimer's disease genes.
Bioinform.
Chong Wu, Jonathan Bradley, Yanming Li, Lang Wu, Hong-Wen Deng
2021 J jnl
A generalized kernel machine approach to identify higher-order composite effects in multi-view datasets, with application to adolescent brain development and osteoporosis.
J. Biomed. Informatics
Md. Ashad Alam, Chuan Qiu, Hui Shen, Yu-Ping Wang, Hong-Wen Deng
2021 J jnl
A new approach to extracting coronary arteries and detecting stenosis in invasive coronary angiograms.
CoRR
Chen Zhao, Haipeng Tang, Daniel McGonigle, Zhuo He, Chaoyang Zhang, Yu-Ping Wang, Hong-Wen Deng, Robert Bober, Weihua Zhou
2021 J jnl
Combining artificial intelligence: deep learning with Hi-C data to predict the functional effects of non-coding variants.
Bioinform.
Xiang-He Meng, Hong-Mei Xiao, Hong-Wen Deng
2021 J jnl
NeuroPred-FRL: an interpretable prediction model for identifying neuropeptide using feature representation learning.
Briefings Bioinform.
Md. Mehedi Hasan, Md. Ashad Alam, Watshara Shoombuatong, Hong-Wen Deng, Balachandran Manavalan, Hiroyuki Kurata
2020 J jnl
A Deep Learning-Based Method for Automatic Segmentation of Proximal Femur from Quantitative Computed Tomography Images.
CoRR
Chen Zhao, 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, Hong-Wen Deng, Weihua Zhou
2020 J jnl
A generalized kernel machine approach to identify higher-order composite effects in multi-view datasets.
CoRR
Md. Ashad Alam, Chuan Qiu, Hui Shen, Yu-Ping Wang, Hong-Wen Deng
2020 J jnl
A novel computational strategy for DNA methylation imputation using mixture regression model (MRM).
BMC Bioinform.
Fangtang Yu, Chao Xu, Hong-Wen Deng, Hui Shen
2020 J jnl
Causal Analysis of Health Interventions and Environments for Influencing the Spread of COVID-19 in the United States of America.
Frontiers Appl. Math. Stat.
Zhouxuan Li, Tao Xu, Kai Zhang, Hong-Wen Deng, Eric Boerwinkle, Momiao Xiong
2019 J jnl
PCA-based GRS analysis enhances the effectiveness for genetic correlation detection.
Briefings Bioinform.
Yan Zhao, Yujie Ning, Feng Zhang, Miao Ding, Yan Wen, Liang Shi, Kunpeng Wang, Mengnan Lu, Jingyan Sun, Menglu Wu, Bolun Cheng, Mei Ma, Lu Zhang, Shiqiang Cheng, Hui Shen, Qing Tian, Xiong Guo, Hong-Wen Deng
2019 J jnl
Robust kernel canonical correlation analysis to detect gene-gene co-associations: A case study in genetics.
J. Bioinform. Comput. Biol.
Md. Ashad Alam, Osamu Komori, Hong-Wen Deng, Vince D. Calhoun, Yu-Ping Wang
2018 J jnl
A Sparse Regression Method for Group-Wise Feature Selection with False Discovery Rate Control.
IEEE ACM Trans. Comput. Biol. Bioinform.
Alexej Gossmann, Shaolong Cao, Damian Brzyski, Lan-Juan Zhao, Hong-Wen Deng, Yu-Ping Wang
2018 J jnl
EPS-LASSO: test for high-dimensional regression under extreme phenotype sampling of continuous traits.
Bioinform.
Chao Xu, Jian Fang, Hui Shen, Yu-Ping Wang, Hong-Wen Deng
2018 J jnl
Fast and Accurate Detection of Complex Imaging Genetics Associations Based on Greedy Projected Distance Correlation.
IEEE Trans. Medical Imaging
Jian Fang, Chao Xu, Pascal Zille, Dongdong Lin, Hong-Wen Deng, Vince D. Calhoun, Yu-Ping Wang
2018 J jnl
Joint Detection of Associations Between DNA Methylation and Gene Expression From Multiple Cancers.
IEEE J. Biomed. Health Informatics
Jian Fang, Ji-Gang Zhang, Hong-Wen Deng, Yu-Ping Wang
2017 J jnl
Comparison of statistical methods for subnetwork detection in the integration of gene expression and protein interaction network.
BMC Bioinform.
Hao He, Dongdong Lin, Ji-Gang Zhang, Yu-Ping Wang, Hong-Wen Deng
2017 J jnl
Tissue-specific pathway association analysis using genome-wide association study summaries.
Bioinform.
Wenyu Wang, Jingcan Hao, Shuyu Zheng, Qianrui Fan, Awen He, Yan Wen, Xiong Guo, Cuiyan Wu, Sen Wang, Tielin Yang, Hui Shen, Xiangding Chen, Qing Tian, Lijun Tan, Hong-Wen Deng, Feng Zhang
2016 J jnl
A Sparse Model Based Detection of Copy Number Variations From Exome Sequencing Data.
IEEE Trans. Biomed. Eng.
Junbo Duan, Mingxi Wan, Hong-Wen Deng, Yu-Ping Wang
2016 J jnl
An integrative imputation method based on multi-omics datasets.
BMC Bioinform.
Dongdong Lin, Ji-Gang Zhang, Jingyao Li, Chao Xu, Hong-Wen Deng, Yu-Ping Wang
2016 J jnl
Unified tests for fine-scale mapping and identifying sparse high-dimensional sequence associations.
Bioinform.
Shaolong Cao, Huaizhen Qin, Alexej Gossmann, Hong-Wen Deng, Yu-Ping Wang
2015 J jnl
MicroRNA-mRNA interaction analysis to detect potential dysregulation in complex diseases.
Netw. Model. Anal. Health Informatics Bioinform.
Wenlong Tang, Chao Xu, Yu-Ping Wang, Hong-Wen Deng, Ji-Gang Zhang
2015 J jnl
SWGDT: A sliding window-based genotype dependence testing tool for genome-wide susceptibility gene scan.
J. Biomed. Informatics
Yan Wen, Jingcan Hao, Xiong Guo, Xiao Xiao, Cuiyan Wu, Sen Wang, Tielin Yang, Hui Shen, Xiangding Chen, Lijun Tan, Qing Tian, Hong-Wen Deng, Feng Zhang
2015 — conf
Unified tests for fine scale mapping and identifying sparse high-dimensional sequence associations.
BCB
Shaolong Cao, Huaizhen Qin, Alexej Gossmann, Hong-Wen Deng, Yu-Ping Wang
2014 J jnl
Common Copy Number Variation Detection From Multiple Sequenced Samples.
IEEE Trans. Biomed. Eng.
Junbo Duan, Hong-Wen Deng, Yu-Ping Wang
2014 J jnl
Critical assessment of coalescent simulators in modeling recombination hotspots in genomic sequences.
BMC Bioinform.
Tao Yang, Hong-Wen Deng, Tianhua Niu
2014 J jnl
FISH: fast and accurate diploid genotype imputation via segmental hidden Markov model.
Bioinform.
Lei Zhang, Yu-Fang Pei, Xiaoying Fu, Yong Lin, Yu-Ping Wang, Hong-Wen Deng
2014 J jnl
FISH: fast and accurate diploid genotype imputation via segmental hidden Markov model.
Bioinform.
Lei Zhang, Yu-Fang Pei, Xiaoying Fu, Yong Lin, Yu-Ping Wang, Hong-Wen Deng
2014 J jnl
Population clustering based on copy number variations detected from next generation sequencing data.
J. Bioinform. Comput. Biol.
Junbo Duan, Ji-Gang Zhang, Mingxi Wan, Hong-Wen Deng, Yu-Ping Wang
2014 — conf
Scaled sparse high-dimensional tests for localizing sequence variants.
BCB
Shaolong Cao, Huaizhen Qin, Jian Li, Hong-Wen Deng, Yu-Ping Wang
2013 — conf
A generalized sparse regression model with adjustment of pedigree structure for variant detection from next generation sequencing data.
BCB
Shaolong Cao, Huaizhen Qin, Hong-Wen Deng, Yu-Ping Wang
2013 J jnl
CNV-TV: A robust method to discover copy number variation from short sequencing reads.
BMC Bioinform.
Junbo Duan, Ji-Gang Zhang, Hong-Wen Deng, Yu-Ping Wang
2013 J jnl
Group sparse canonical correlation analysis for genomic data integration.
BMC Bioinform.
Dongdong Lin, Ji-Gang Zhang, Jingyao Li, Vince D. Calhoun, Hong-Wen Deng, Yu-Ping Wang
2013 — conf
Modeling exome sequencing data with generalized Gaussian distribution with application to copy number variation detection.
BIBM
Junbo Duan, Mingxi Wan, Hong-Wen Deng, Yu-Ping Wang
2013 — conf
Network-based investigation of genetic modules associated with functional brain networks in schizophrenia.
BIBM
Dongdong Lin, Hao He, Jingyao Li, Hong-Wen Deng, Vince D. Calhoun, Yu-Ping Wang
2012 — conf
Copy number variation estimation from multiple next-generation sequencing samples.
BCB
Junbo Duan, Ji-Gang Zhang, Hongbao Cao, Hong-Wen Deng, Yu-Ping Wang
2012 — conf
Detection of common copy number variation with application to population clustering from next generation sequencing data.
EMBC
Junbo Duan, Ji-Gang Zhang, Hong-Wen Deng, Yu-Ping Wang
2012 — conf
Identification of genes for complex diseases by integrating multiple types of genomic data.
EMBC
Hongbao Cao, Shufeng Lei, Hong-Wen Deng, Yu-Ping Wang
2011 J jnl
Comparative studies of
Bioinform.
Yong Lin, Jian Li, Hui Shen, Lei Zhang, Christopher J. Papasian, Hong-Wen Deng
2011 — conf
Detection of copy number variation from next generation sequencing data with total variation penalized least square optimization.
BIBM Workshops
Junbo Duan, Ji-Gang Zhang, John Lefante, Hong-Wen Deng, Yu-Ping Wang
2011 J jnl
Integrated Analysis of Gene Expression and Copy Number Data on Gene Shaving Using Independent Component Analysis.
IEEE ACM Trans. Comput. Biol. Bioinform.
Jinhua Sheng, Hong-Wen Deng, Vince D. Calhoun, Yu-Ping Wang
2010 J jnl
A Bayesian Analysis for Identifying DNA Copy Number Variations Using a Compound Poisson Process.
EURASIP J. Bioinform. Syst. Biol.
Jie Chen, Ayten Yigiter, Yu-Ping Wang, Hong-Wen Deng
2009 J jnl
A new permutation strategy of pathway-based approach for genome-wide association study.
BMC Bioinform.
Yan-Fang Guo, Jian Li, Yuan Chen, Li-Shu Zhang, Hong-Wen Deng
2009 J jnl
Bayesian robust analysis for genetic architecture of quantitative traits.
Bioinform.
Runqing Yang, Xin Wang, Jian Li, Hong-Wen Deng
2008 J jnl
HAPSIMU: a genetic simulation platform for population-based association studies.
BMC Bioinform.
Feng Zhang, Jianfeng Liu, Jie Chen, Hong-Wen Deng
2007 J jnl
Gene selection for classification of microarray data based on the Bayes error.
BMC Bioinform.
Ji-Gang Zhang, Hong-Wen Deng
2006 J jnl
JADE: a distributed Java application for deleterious genomic mutation (DGM) estimation.
Bioinform.
Jin-Long Li, Miao-Xin Li, Yan-Fang Guo, H.-Y. Deng, Hong-Wen Deng
2005 J jnl
Hotelling's
Bioinform.
Yan Lu, Peng-Yuan Liu, Peng Xiao, Hong-Wen Deng
2005 J jnl
PhD: a web database application for phenotype data management.
Bioinform.
Jin-Long Li, Miao-Xin Li, H.-Y. Deng, P. E. Duffy, Hong-Wen Deng
2005 J jnl
SNPP: automating large-scale SNP genotype data management.
Bioinform.
Lan-Juan Zhao, Miao-Xin Li, Yan-Fang Guo, Fu-Hua Xu, Jin-Long Li, Hong-Wen Deng