Cross-population enhancement of PrediXcan predictions with a gnomAD-based east Asian reference framework. - Chan, Han-Ching; Chattopadhyay, Amrita; Lu, Tzu-Pin (Briefings Bioinform., 2024)

Predicting drug response through tumor deconvolution by cancer cell lines. - Hsu, Yu-Ching; Chiu, Yu-Chiao; Lu, Tzu-Pin; Hsiao, Tzu-Hung; Chen, Yidong (Patterns, 2024)

Multi-ethnic Imputation System (MI-System): A genotype imputation server for high-dimensional data. - Chattopadhyay, Amrita; Lee, Chien-Yueh; Shen, Ying-Cheng; Lu, Kuan-Chen; Hsiao, Tzu-Hung; Lin, Ching-Heng; Lai, Liang-Chuan; Tsai, Mong-Hsun; Lu, Tzu-Pin; Chuang, Eric Y. (J. Biomed. Informatics, 2023)

CLIN_SKAT: an R package to conduct association analysis using functionally relevant variants. - Chattopadhyay, Amrita; Shih, Ching-Yu; Hsu, Yu-Chen; Juang, Jyh-Ming Jimmy; Chuang, Eric Y.; Lu, Tzu-Pin (BMC Bioinform., 2022)

ceRNAR: An R package for identification and analysis of ceRNA-miRNA triplets. - Hsiao, Yi-Wen; Wang, Lin; Lu, Tzu-Pin (PLoS Comput. Biol., 2022)

High-performance deep learning pipeline predicts individuals in mixtures of DNA using sequencing data. - Phan, Nam Nhut; Chattopadhyay, Amrita; Lee, Tsui-Ting; Yin, Hsiang-I; Lu, Tzu-Pin; Lai, Liang-Chuan; Hwa, Hsiao-Lin; Tsai, Mong-Hsun; Chuang, Eric Y. (Briefings Bioinform., 2021)

CNVIntegrate: the first multi-ethnic database for identifying copy number variations associated with cancer. - Chattopadhyay, Amrita; Teoh, Zi Han; Wu, Chi-Yun; Juang, Jyh-Ming Jimmy; Lai, Liang-Chuan; Tsai, Mong-Hsun; Wu, Chia-Hsin; Lu, Tzu-Pin; Chuang, Eric Y. (Database J. Biol. Databases Curation, 2021)

Gene-set integrative analysis of multi-omics data using tensor-based association test. - Chang, Sheng-Mao; Yang, Meng; Lu, Wenbin; Huang, Yu-Jyun; Huang, Yueyang; Hung, Hung; Miecznikowski, Jeffrey C.; Lu, Tzu-Pin; Tzeng, Jung-Ying (Bioinform., 2021)

Transcript annotation tool (TransAT): an R package for retrieving annotations for transcript-specific genetic variants. - Shih, Ching-Yu; Chattopadhyay, Amrita; Wu, Chien-Hui; Tien, Yu-Wen; Lu, Tzu-Pin (BMC Bioinform., 2021)

RNASeqR: An R Package for Automated Two-Group RNA-Seq Analysis Workflow. - Chao, Kuan-Hao; Hsiao, Yi-Wen; Lee, Yi-Fang; Lee, Chien-Yueh; Lai, Liang-Chuan; Tsai, Mong-Hsun; Lu, Tzu-Pin; Chuang, Eric Y. (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

Association test using Copy Number Profile Curves (CONCUR) enhances power in rare copy number variant analysis. - Brucker, Amanda; Lu, Wenbin; West, Rachel Marceau; Yu, Qi-You; Hsiao, Chuhsing Kate; Hsiao, Tzu-Hung; Lin, Ching-Heng; Magnusson, Patrik K. E.; Sullivan, Patrick F.; Szatkiewicz, Jin P.; Lu, Tzu-Pin; Tzeng, Jung-Ying (PLoS Comput. Biol., 2020)

Genome-Wide Association Study (GWAS) on Metabolic Syndrome in Subjects with Abdominal Obesity in a Taiwanese Population. - Yeh, Kuan-Hung; Lin, Ching-Heng; Hsiao, Tzu-Hung; Lu, Tzu-Pin (2020)

VariED: the first integrated database of gene annotation and expression profiles for variants related to human diseases. - Lee, Chien-Yueh; Chattopadhyay, Amrita; Chiang, Li-Mei; Juang, Jyh-Ming Jimmy; Lai, Liang-Chuan; Tsai, Mong-Hsun; Lu, Tzu-Pin; Chuang, Eric Y. (Database J. Biol. Databases Curation, 2019)

anamiR: integrated analysis of MicroRNA and gene expression profiling. - Wang, Ti-Tai; Lee, Chien-Yueh; Lai, Liang-Chuan; Tsai, Mong-Hsun; Lu, Tzu-Pin; Chuang, Eric Y. (BMC Bioinform., 2019)

CellExpress: a comprehensive microarray-based cancer cell line and clinical sample gene expression analysis online system. - Lee, Yi-Fang; Lee, Chien-Yueh; Lai, Liang-Chuan; Tsai, Mong-Hsun; Lu, Tzu-Pin; Chuang, Eric Y. (Database J. Biol. Databases Curation, 2018)

Probabilistic prioritization of candidate pathway association with pathway score. - Lin, Shu-Ju; Lu, Tzu-Pin; Yu, Qi-You; Hsiao, Chuhsing Kate (BMC Bioinform., 2018)

iGC - an integrated analysis package of gene expression and copy number alteration. - Lai, Yi-Pin; Wang, Liang-Bo; Wang, Wei-An; Lai, Liang-Chuan; Tsai, Mong-Hsun; Lu, Tzu-Pin; Chuang, Eric Y. (BMC Bioinform., 2017)

Differential correlation analysis of glioblastoma reveals immune ceRNA interactions predictive of patient survival. - Chiu, Yu-Chiao; Wang, Li-Ju; Lu, Tzu-Pin; Hsiao, Tzu-Hung; Chuang, Eric Y.; Chen, Yidong (BMC Bioinform., 2017)

Cost-sensitive performance metric for comparing multiple ordinal classifiers. - George, Nysia I.; Lu, Tzu-Pin; Chang, Ching-Wei (Artif. Intell. Res., 2016)

Identification of reproducible gene expression signatures in lung adenocarcinoma. - Lu, Tzu-Pin; Chuang, Eric Y.; Chen, James J. (BMC Bioinform., 2013)

Concurrent analysis of copy number variation and gene expression: application in paired non-smoking female lung cancer patients. - Chen, Pei-Chun; Lu, Tzu-Pin; Chang, Jung-Chih; Lai, Liang-Chuan; Tsai, Mong-Hsun; Hsiao, Chuhsing Kate; Chuang, Eric Y. (Int. J. Data Min. Bioinform., 2013)

Concurrent analysis of copy number variations and expression profiles to identify genes associated with tumorigenesis and survival outcome in lung adenocarcinoma. - Lu, Tzu-Pin; Lai, Liang-Chuan; Hsiao, Chuhsing Kate; Chen, Pei-Chun; Tsai, Mong-Hsun; Chuang, Eric Y. (2010)

Concurrent analysis of copy number variation and gene expression: Application in paired non-smoking female lung cancer patients. - Chang, Jung-Chih; Lu, Tzu-Pin; Chuang, Eric Y.; Lai, Liang-Chuan; Tsai, Mong-Hsun; Hsiao, Chuhsing Kate; Chen, Pei-Chun (2010)