Learning the Tree of Phenotypes Using Genomic Data and VISDA. - Yuanjian Feng; Zuyi Wang; Yitan Zhu; Jianhua Xuan; David J. Miller 001 (BIBE, 2006)

ModVis: An information visualization tool for gene module discovery. - Justin Molineaux; Jianhua Xuan; Ting Gong; Yitan Zhu; Eric P. Hoffman; Robert Clarke; Yue Joseph Wang (CAINE, 2006)

Latent Variable and nICA Modeling of Pathway Gene Module Composite. - Ting Gong; Yitan Zhu; Jianhua Xuan; Huai Li; Robert Clarke; Eric P. Hoffman; Yue Wang 021 (EMBC, 2006)

Phenotypic-Specific Gene Module Discovery using a Diagnostic Tree and caBIGTM VISDA. - Yitan Zhu; Zuyi Wang; Yuanjian Feng; Jianhua Xuan; David J. Miller 001; Eric P. Hoffman; Yue Wang 021 (EMBC, 2006)

Face Detection and Recognition using Colour Sequential Images. - Zhonglong Zheng; Jie Yang 002; Yitan Zhu (J. Res. Pract. Inf. Technol., 2006)

VISDA: an open-source caBIGTM analytical tool for data clustering and beyond. - Jiajing Wang; Huai Li; Yitan Zhu; Malik Yousef; Michael Nebozhyn; Michael M. Showe; Louise C. Showe; Jianhua Xuan; Robert Clarke; Yue Joseph Wang (Bioinform., 2007)

Initialization enhancer for non-negative matrix factorization. - Zhonglong Zheng; Jie Yang 002; Yitan Zhu (Eng. Appl. Artif. Intell., 2007)

caBIGTM VISDA: Modeling, visualization, and discovery for cluster analysis of genomic data. - Yitan Zhu; Huai Li; David J. Miller 001; Zuyi Wang; Jianhua Xuan; Robert Clarke; Eric P. Hoffman; Yue Joseph Wang (BMC Bioinform., 2008)

A face detection and recognition system in color image series. - Jie Yang 002; Xufeng Ling; Yitan Zhu; Zhonglong Zheng (Math. Comput. Simul., 2008)

Learning Statistical and Geometric Models from Microarray Gene Expression Data. - Yitan Zhu (2009)

TCGA-assembler 2: software pipeline for retrieval and processing of TCGA/CPTAC data. - Lin Wei; Zhilin Jin; Shengjie Yang; Yanxun Xu; Yitan Zhu; Yuan Ji (Bioinform., 2018)

Bayesian nonparametric clustering for large data sets. - Daiane Aparecida Zuanetti; Peter Müller 003; Yitan Zhu; Shengjie Yang; Yuan Ji (Stat. Comput., 2019)

A Systematic Approach to Featurization for Cancer Drug Sensitivity Predictions with Deep Learning. - Austin Clyde; Tom Brettin; Alexander Partin; Maulik Shaulik; Hyun Seung Yoo; Yvonne A. Evrard; Yitan Zhu; Fangfang Xia; Rick Stevens (CoRR, 2020)

Ensemble Transfer Learning for the Prediction of Anti-Cancer Drug Response. - Yitan Zhu; Thomas S. Brettin; Yvonne A. Evrard; Alexander Partin; Fangfang Xia; Maulik Shukla; Hyun Seung Yoo; James H. Doroshow; Rick Stevens (CoRR, 2020)

Learning curves for drug response prediction in cancer cell lines. - Alexander Partin; Thomas S. Brettin; Yvonne A. Evrard; Yitan Zhu; Hyun Seung Yoo; Fangfang Xia; Songhao Jiang; Austin Clyde; Maulik Shukla; Michael Fonstein; James H. Doroshow; Rick L. Stevens (BMC Bioinform., 2021)

A cross-study analysis of drug response prediction in cancer cell lines. - Fangfang Xia; Jonathan E. Allen; Prasanna Balaprakash; Thomas S. Brettin; Cristina Garcia-Cardona; Austin Clyde; Judith D. Cohn; James H. Doroshow; Xiaotian Duan; Veronika Dubinkina; Yvonne A. Evrard; Ya Ju Fan; et al. (Briefings Bioinform., 2022)

Deep learning methods for drug response prediction in cancer: predominant and emerging trends. - Alexander Partin; Thomas S. Brettin; Yitan Zhu; Oleksandr Narykov; Austin Clyde; Jamie C. Overbeek; Rick L. Stevens (CoRR, 2022)

Entropy-Based Regularization on Deep Learning Models for Anti-Cancer Drug Response Prediction. - Oleksandr Narykov; Yitan Zhu; Thomas S. Brettin; Yvonne A. Evrard; Alexander Partin; Maulik Shukla; Priyanka Vasanthakumari; James H. Doroshow; Rick Stevens (SC Workshops, 2023)

Variational and Explanatory Neural Networks for Encoding Cancer Profiles and Predicting Drug Responses. - Tianshu Feng; Rohan Gnanaolivu; Abolfazl Safikhani; Yuanhang Liu; Jun Jiang; Nicholas Chia; Alexander Partin; Priyanka Vasanthakumari; Yitan Zhu; Chen Wang (CoRR, 2024)

Assessing Reusability of Deep Learning-Based Monotherapy Drug Response Prediction Models Trained with Omics Data. - Jamie C. Overbeek; Alexander Partin; Thomas S. Brettin; Nicholas Chia; Oleksandr Narykov; Priyanka Vasanthakumari; Andreas Wilke; Yitan Zhu; Austin Clyde; Sara Jones; Rohan Gnanaolivu; Yuanhang Liu; et al. (CoRR, 2024)

Data imbalance in drug response prediction: multi-objective optimization approach in deep learning setting. - Oleksandr Narykov; Yitan Zhu; Thomas S. Brettin; Yvonne A. Evrard; Alexander Partin; Fangfang Xia; Maulik Shukla; Priyanka Vasanthakumari; James H. Doroshow; Rick L. Stevens (Briefings Bioinform., 2025)

Benchmarking community drug response prediction models: datasets, models, tools, and metrics for cross-dataset generalization analysis. - Alexander Partin; Priyanka Vasanthakumari; Oleksandr Narykov; Andreas Wilke; Natasha Koussa; Sara E. Jones; Yitan Zhu; Jamie C. Overbeek; Rajeev Jain; Gayara Demini Fernando; Cesar Sanchez-Villalobos; Cristina Garcia-Cardona; et al. (CoRR, 2025)