Enhancer connectome in primary human cells reveals target genes of disease-associated DNA elements
Mumbach MR*, Satpathy AT*, Boyle EA*, Dai C*, Gowen BG, Cho SW, Nguyen ML, Rubin AJ, Granja JM, Kazane KR, Wei Y, Nguyen T, Greenside PG, Corces MR, Tycko J, Simeonov DR, Suliman N, Li R, Xu J, Flynn RA, Kundaje A, Khavari PA, Marson A, Corn JE, Quertermous T, Greenleaf WJ*, Chang HY*.
Nature Genetics, 1 November 2017
An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues
Corces MR, Trevino AE, Hamilton EG, Greenside PG, Sinnott-Armstrong NA, Vesuna S, Satpathy AT, Rubin AJ, Montine KS, Wu B, Kathiria A, Cho SW, Mumbach MR, Carter AC, Kasowski M, Orloff LA, Risca VI, Kundaje A, Khavari PA, Montine TJ, Greenleaf WJ*, Chang HY*.
Nature Methods, 1 October 2017
Discovery of stimulation-responsive immune enhancers with unbiased CRISPR activation
Simeonov DR*, Gowen BG*, Boontanrart M, Roth T, Gagnon JD, Mumbach MR, Satpathy AT, Lee Y, Bray NL, Chan A, Lituev DS, Nguyen ML, Gate RE, Subramaniam M, Li Z, Woo JM, Mitros T, Ray GJ, Bray NL, Curie GL, Naddaf N, Chu JS, Ma H, Boyer E, Gool FV, Huang H, Liu R, Tobin VR, Schumann K, Daly MJ, Farh KK, Ansel KM, Ye C, Greenleaf WJ, Anderson MS, Bluestone JA, Chang HY, Corn JE*, Marson A*.
Nature, 7 September 2017
Revisiting the specificity of the MHC class II transactivator CIITA in classical murine dendritic cells in vivo
Anderson DA, Grajales-Reyes GE, Satpathy AT, Hueichucura CEV, Murphy TL, Murphy KM.
European Journal of Immunology, 2 August 2017
Chromatin accessibility landscape of cutaneous T cell lymphoma and dynamic response to HDAC inhibitors
Qu K*, Zaba LC*, Satpathy AT, Giresi PG, Li R, Jin Y, Armstrong R, Jin C, Schmitt N, Rahbar Z, Ueno H, Greenleaf WJ, Kim YH*, Chang HY*.
Cancer Cell, 10 July 2017
Cutting Edge: Origins, recruitment, and regulation of CD11c+ cells in inflamed islets of autoimmune diabetes mice
Klementowicz JE, Mahne AE, Spence A, Nguyen V, Satpathy AT, Murphy KM, Tang Q.
Journal of Immunology, 26 May 2017
ATAC-see reveals the accessible genome by transposase-mediated imaging and sequencing
Chen X, Shen Y, Draper W, Buenrostro JD, Litzenburger U, Cho SW, Satpathy AT, Carter AC, Ghosh RP, East-Seletsky A, Doudna JA, Greenleaf WJ, Liphardt JT, Chang HY.
Nature Methods, 1 December 2016
A long noncoding RNA lincRNA-EPS acts as a transcriptional brake to restrain inflammation
Atianand MK, Hu W, Satpathy AT, Shen Y, Ricci EP, Alvarez-Dominguez JR, Bhatta A, McGowan J, Schattgen SA, Blin J, Braun JE, Gandhi P, Moore MJ, Chang HY, Lodish HF, Caffrey DR, Fitzgerald KA.
Cell, 16 June 2016