Inference of transcriptional regulatory network by two-stage constrained space factor analysis. - Tianwei Yu; Ker-Chau Li (Bioinform., 2005)

Study of coordinative gene expression at the biological process level. - Tianwei Yu; Wei Sun 006; Shinsheng Yuan; Ker-Chau Li (Bioinform., 2005)

Detection of eQTL modules mediated by activity levels of transcription factors. - Wei Sun 006; Tianwei Yu; Ker-Chau Li (Bioinform., 2007)

A forward-backward fragment assembling algorithm for the identification of genomic amplification and deletion breakpoints using high-density single nucleotide polymorphism (SNP) array. - Tianwei Yu; Hui Ye; Wei Sun 006; Ker-Chau Li; Zugen Chen; Sharoni Jacobs; Dione K. Bailey; David T. Wong; Xiaofeng Zhou (BMC Bioinform., 2007)

apLCMS - adaptive processing of high-resolution LC/MS data. - Tianwei Yu; Youngja Park; Jennifer M. Johnson; Dean P. Jones (Bioinform., 2009)

An exploratory data analysis method to reveal modular latent structures in high-throughput data. - Tianwei Yu (BMC Bioinform., 2010)

Quantification and deconvolution of asymmetric LC-MS peaks using the bi-Gaussian mixture model and statistical model selection. - Tianwei Yu; Hesen Peng (BMC Bioinform., 2010)

Clustering based on periodicity in high-throughput time course data. - Anna J. Blackstock; Amita K. Manatunga; Youngja Park; Dean P. Jones; Tianwei Yu (Stat. Anal. Data Min., 2011)

Incorporating Nonlinear Relationships in Microarray Missing Value Imputation. - Tianwei Yu; Hesen Peng; Wei Sun 006 (IEEE ACM Trans. Comput. Biol. Bioinform., 2011)

xMSanalyzer: automated pipeline for improved feature detection and downstream analysis of large-scale, non-targeted metabolomics data. - Karan Uppal; Quinlyn A. Soltow; Frederick H. Strobel; W. Stephen Pittard; Kim M. Gernert; Tianwei Yu; Dean P. Jones (BMC Bioinform., 2013)

AAPL: assessing association between p-value lists. - Tianwei Yu; Yize Zhao; Shihao Shen (Stat. Anal. Data Min., 2013)

Hierarchical Clustering of High- Throughput Expression Data Based on General Dependences. - Tianwei Yu; Hesen Peng (IEEE ACM Trans. Comput. Biol. Bioinform., 2013)

Improving peak detection in high-resolution LC/MS metabolomics data using preexisting knowledge and machine learning approach. - Tianwei Yu; Dean P. Jones (Bioinform., 2014)

Network-based modular latent structure analysis. - Tianwei Yu; Yun Bai (BMC Bioinform., 2014)

Bayesian network feature finder (BANFF): an R package for gene network feature selection. - Zhou Lan; Yize Zhao; Jian Kang 003; Tianwei Yu (Bioinform., 2016)

Detecting subnetwork-level dynamic correlations. - Yan Yan; Shangzhao Qiu; Zhuxuan Jin; Sihong Gong; Yun Bai; Jianwei Lu; Tianwei Yu (Bioinform., 2017)

Mitigating the adverse impact of batch effects in sample pattern detection. - Teng Fei; Tengjiao Zhang; Weiyang Shi; Tianwei Yu (Bioinform., 2018)

Missing value imputation for LC-MS metabolomics data by incorporating metabolic network and adduct ion relations. - Zhuxuan Jin; Jian Kang 003; Tianwei Yu (Bioinform., 2018)

A graph-embedded deep feedforward network for disease outcome classification and feature selection using gene expression data. - Yunchuan Kong; Tianwei Yu (Bioinform., 2018)

A new dynamic correlation algorithm reveals novel functional aspects in single cell and bulk RNA-seq data. - Tianwei Yu (PLoS Comput. Biol., 2018)

Nonlinear variable selection with continuous outcome: A fully nonparametric incremental forward stagewise approach. - Tianwei Yu (Stat. Anal. Data Min., 2018)

forgeNet: A graph deep neural network model using tree-based ensemble classifiers for feature extraction. - Yunchuan Kong; Tianwei Yu (CoRR, 2019)

Real-Time Semantic Plane Reconstruction on a Monocular Drone Using Sparse Fusion. - Yuanjie Dang; Peng Chen 008; Ronghua Liang; Chong Huang; Yuesheng Tang; Tianwei Yu; Xin Yang 008; Kwang-Ting Cheng (IEEE Trans. Veh. Technol., 2019)

DNLC: differential network local consistency analysis. - Jianwei Lu; Yao Lu; Yusheng Ding; Qingyang Xiao; Linqing Liu; Qingpo Cai; Yunchuan Kong; Yun Bai; Tianwei Yu (BMC Bioinform., 2019)

scBatch: batch-effect correction of RNA-seq data through sample distance matrix adjustment. - Teng Fei; Tianwei Yu (Bioinform., 2020)

forgeNet: a graph deep neural network model using tree-based ensemble classifiers for feature graph construction. - Yunchuan Kong; Tianwei Yu (Bioinform., 2020)

Accurate feature selection improves single-cell RNA-seq cell clustering. - Kenong Su; Tianwei Yu; Hao Wu 003 (Briefings Bioinform., 2021)

BraceNet: Graph-Embedded Neural Network For Brain Network Analysis. - Xuan Kan; Yunchuan Kong; Tianwei Yu; Ying Guo 003 (IEEE Big Data, 2022)

Metapone: a Bioconductor package for joint pathway testing for untargeted metabolomics data. - Leqi Tian; Zhenjiang Li; Guoxuan Ma; Xiaoyue Zhang; Ziyin Tang; Siheng Wang; Jian Kang 003; Donghai Liang; Tianwei Yu (Bioinform., 2022)

AIME: Autoencoder-based integrative multi-omics data embedding that allows for confounder adjustments. - Tianwei Yu (PLoS Comput. Biol., 2022)

An Attention Cascade Global-Local Network for Remote Sensing Scene Classification. - Junge Shen; Tianwei Yu; Haopeng Yang; Ruxin Wang 002; Qi Wang 009 (Remote. Sens., 2022)

Real-Time Efficient Trajectory Planning for Quadrotor Based on Hard Constraints. - Peng Chen 008; Yongqi Jiang; Yuanjie Dang; Tianwei Yu; Ronghua Liang (J. Intell. Robotic Syst., 2022)

Multi-Speed Global Contextual Subspace Matching for Few-Shot Action Recognition. - Tianwei Yu; Peng Chen 008; Yuanjie Dang; Ruohong Huan; Ronghua Liang (ACM Multimedia, 2023)

An integrated deep learning framework for the interpretation of untargeted metabolomics data. - Leqi Tian; Tianwei Yu (Briefings Bioinform., 2023)

MM-GANN-DDI: Multimodal Graph-Agnostic Neural Networks for Predicting Drug-Drug Interaction Events. - Junning Feng; Yong Liang 001; Tianwei Yu (Comput. Biol. Medicine, 2023)

Fast-scBatch: Batch Effect Correction Using Neural Network-Driven Distance Matrix Adjustment. - Fu Chen; Leqi Tian; Teng Fei; Tianwei Yu (BCB, 2024)

ADM: adaptive graph diffusion for meta-dimension reduction. - Junning Feng; Yong Liang; Tianwei Yu (Briefings Bioinform., 2024)

Nonlinear embedding and integration of omics data: a fast and tuning-free approach. - Shengjie Liu; Tianwei Yu (Briefings Bioinform., 2024)

Bayesian functional analysis for untargeted metabolomics data with matching uncertainty and small sample sizes. - Guoxuan Ma; Jian Kang 003; Tianwei Yu (Briefings Bioinform., 2024)

A robust statistical approach for finding informative spatially associated pathways. - Leqi Tian; Jiashun Xiao; Tianwei Yu (Briefings Bioinform., 2024)

G3DC: A Gene-Graph-Guided Selective Deep Clustering Method for Single Cell RNA-seq Data. - Shuqing He; Jicong Fan 001; Tianwei Yu (Big Data Min. Anal., 2024)

Dissecting genetic regulation of metabolic coordination. - Emily C. Hector; Daiwei Zhang; Leqi Tian; Junning Feng; Xianyong Yin; Tianyi Xu; Markku Laakso; Yun Bai; Jiashun Xiao; Jian Kang 003; Tianwei Yu (Briefings Bioinform., 2025)