Enhancer connectome nominates target genes of inherited risk variants from inflammatory skin disorders

Jeng MY, Mumbach MR, Granja JM, Satpathy AT, Chang HY, Chang ALS.
Journal of Investigative Dermatology, 10 October 2018

Expression of the transcription factor ZBTB46 distinguishes human histiocytic disorders of classical dendritic cell origin

Satpathy AT*#, Brown RA*, Gomulia E, Briseno CG, Mumbach MR, Pan Z, Murphy KM, Natkunam Y, Chang HY, Kim J. *contributed equally, #corresponding author
Modern Pathology, 1 September 2018

Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations

Duren Z*, Chen X*, Zamanighomi M*, Zeng W, Satpathy AT, Chang HY, Wang Y, Wong W.
PNAS, 24 July 2018

Transcript-indexed ATAC-seq for precision immune profiling

Satpathy AT*, Saligrama N*, Buenrostro JD*, Wei Y, Wu B, Rubin AJ, Granja JM, Li R, Mumbach MR, Lareau CA, Serratelli WS, Gennert DG, Schep AN, Corces MR, Kim YH, Khavari PA, Greenleaf WJ, Davis MM*, Chang HY*. *contributed equally
Nature Medicine, 1 May 2018

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

Gene regulation in the immune system by long noncoding RNAs

Chen YG*, Satpathy AT*, Chang HY.
Nature Immunology, 22 August 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