PUBLICATIONS

2015-2022

Cornejo P, Roper K, Degnan S, Degnan B, Wong ES (2022) Distal regulation, silencers and a shared combinatorial syntax are hallmarks of animal embryogenesis. Genome Research 32:474-487

Fennell KA, Vassiliadis D, Lam L, Martelotto LG, Balic J, Wang Q, Hollizeck S, Weber T, Semple T, Miles D, MacPherson L, Kat L, Wong ES, Dawson S, Naik S, Dawson MA (2022) Identifying non-genetic determinants of malignant clonal fitness at single cell resolution. Nature 601:125-131

Flochay S^, Wong ES^, Zhao B^, Viales R, Thomas-Cholier M, Thieffry D, Garfield D*, Furlong E* (2021) Cis-acting variation is common across regulatory layers but is often buffered in developmental programs Genome Research 31:211-224 [doi:10.1101/gr.266338.120]  ^ equal contributions

Wong ES*, Zheng D, Tan S, Bower N, Garside V, Vanwalleghem G, Gaiti F, Scott E, Hogan B, Kikuchi K, McGlinn E, Francois M*, Degnan B* (2020) Deep conservation of the enhancer regulatory code in animals Science 370:6517 [doi: 10.1126/science.aax8137]  * co-corresponding

Friedman CE, Nguyen Q, Lukowsk S, Helfer A, Chiu H, Miklas J, Levy S, Suo S, Han J, Osteil P, Peng G, Jing Nm Baillie G, Senabouth A, Christ A, Bruxner T, Murry C, Wong ES, Ding J, Wang Y, Hudson J, Ruohola-Baker H, Bar-Joseph Z, Tam P, Powell J*, Palpant NJ* (2018) Single cell transcriptomic analysis of cardiac differentiation from human PSCs reveals HOPX-dependent cardiomyocyte maturation Cell Stem Cell 23:586-598 [doi: 10.1016/j.stem.2018.09.009]

Jasinska AJ, Zelaya I, Service SK, Peterson C, Cantor R, Choi O, DeYoung J, Eskin E, Fairbanks L, Fears S, Furterer A, Huang Y, Ramensky V, Chmitt C, Svardal H, Jorgensen M, Kapln J, Villar D, Aken B, Flicek P, Nag R, Wong ES, Blangero J, Dyer T, Bogomolv M, Benjamini Y, Weinstock G, Dewar K, Sabatti C, Wilson R, Jentsch D, Warren W, Coppola G, Woods R, Freimer N* (2017) Genetic variation and gene expression across multiple tissues and developmental stages in a non-human primate Nature Genetics 49:1714-1721 [doi: 10/1038/ng.3959]

Wong ES, Schmitt B, Thybert D, Marioni J, Ferguson-Smith A, Odom DS*, Flicek P* (2017) Interplay of cis and trans mechanisms driving transcription factor binding, chromatin, and gene expression evolution  Nature Communications8:1092 [doi: 10.1038/s41467-017-011037-x] *co-corresponding

Wong ES, Thybert D, Schmitt B, Stefflova K, Odom DS*, Flicek P* (2015) Decoupling of evolutionary changes in transcription factor binding and gene expression in mammals Genome Research 25:167-78 [doi: 10.1101/gr.177840.114]