GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA, miRNA, and mRNA data in GDC (Bioinformatics, 2018)
Hapi: an R package for inference of chromosome-length haplotypes by single reproductive cell sequencing (Molecular Biology and Evolution, 2020)
Databases/Web Tools
CancerMIRNome: an interactive analysis and visualization database for miRNome profiles of human cancer (Nucleic Acids Research, 2022)
PCaDB: a comprehensive and interactive database of transcriptomes from prostate cancer population cohorts (Cancer Research, Under Review)
WebGEO: a web tool for ultra-fast parsing of metadata from Gene Expression Omnibus (GEO)
Statistical Algorithms
SFS-BLUPH: an algorithm for integrating multi-omics data for cancer prognosis leveraging genomic selection methodology (Briefings in Bioinformatics, 2021)