Integrative Analysis of Deep Sequencing Data Identifies Estrogen Receptor Early Response Genes and Links ATAD3B to Poor Survival in Breast Cancer. - Kristian Ovaska; Filomena Matarese; Korbinian Grote; Iryna Charapitsa; Alejandra Cervera; Chengyu Liu 002; George Reid; Martin Seifert; Hendrik G. Stunnenberg; Sampsa Hautaniemi (PLoS Comput. Biol., 2013)

Dynamic visualization of multi-level molecular data: The Director package in R. - Katherine Icay; Chengyu Liu 002; Sampsa Hautaniemi (Comput. Methods Programs Biomed., 2018)

PerPAS: Topology-Based Single Sample Pathway Analysis Method. - Chengyu Liu 002; Rainer Lehtonen; Sampsa Hautaniemi (IEEE ACM Trans. Comput. Biol. Bioinform., 2018)