Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data. - Bin Wang; John M. Cunningham; Xinan Holly Yang (Bioinform., 2015)

Systematic computation with functional gene-sets among leukemic and hematopoietic stem cells reveals a favorable prognostic signature for acute myeloid leukemia. - Xinan Yang; Meiyi Li; Bin Wang; Wanqi Zhu; Aurelie Desgardin; Kenan Onel; Jill de Jong; Jianjun Chen; Luonan Chen; John M. Cunningham (BMC Bioinform., 2015)

Incorporating genomic, transcriptomic and clinical data: a prognostic and stem cell-like MYC and PRC imbalance in high-risk neuroblastoma. - Xinan Holly Yang; Fangming Tang; Jisu Shin 003; John M. Cunningham (BMC Syst. Biol., 2017)

CisPi: a transcriptomic score for disclosing cis-acting disease-associated lincRNAs. - Zhezhen Wang; John M. Cunningham; Xinan Holly Yang (Bioinform., 2018)