ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments. - Alexander Lachmann; Huilei Xu; Jayanth Krishnan; Seth I. Berger; Amin R. Mazloom; Avi Ma'ayan (Bioinform., 2010)

SVM classifier to predict genes important for self-renewal and pluripotency of mouse embryonic stem cells. - Huilei Xu; Ihor Lemischka; Avi Ma'ayan (BMC Syst. Biol., 2010)

Visualization of Patient Samples by Dimensionality Reduction of Genome-Wide Measurements. - Huilei Xu; Avi Ma'ayan (USAB, 2011)

Expression2Kinases: mRNA profiling linked to multiple upstream regulatory layers. - Edward Y. Chen; Huilei Xu; Simon Gordonov; Maribel P. Lim; Matthew H. Perkins; Avi Ma'ayan (Bioinform., 2012)

ESCAPE: database for integrating high-content published data collected from human and mouse embryonic stem cells. - Huilei Xu; Caroline Baroukh; Ruth Dannenfelser; Edward Y. Chen; Christopher M. Tan; Yan Kou; Yujin E. Kim; Ihor Lemischka; Avi Ma'ayan (Database J. Biol. Databases Curation, 2013)

Construction and Validation of a Regulatory Network for Pluripotency and Self-Renewal of Mouse Embryonic Stem Cells. - Huilei Xu; Yen-Sin Ang; Ana Sevilla; Ihor Lemischka; Avi Ma'ayan (PLoS Comput. Biol., 2014)