1. Xist ribonucleoproteins promote female sex-biased autoimmunity. Dou DR, Zhao Y, Belk JA, Zhao Y, Casey KM, Chen DC, Li R, Yu B, Srinivasan S, Abe BT, Kraft K, Hellstrom C, Sjoberg R, Chang S, Feng A, Goldman D, Shah A, Petri M, Chung L, Fiorentino D, Lundberg E, Wutz A, Utz P, Chang HY. Cell. 2024 Feb 1. Link

2. Engineering circular RNA for enhanced protein production. Chen R, Wang SK, Belk JA, Amaya L, Li Z, Cardenas A, Abe BT, Chen CK, Wender PA, Chang HY. Nature Biotechnology. 2022 Jul 18. Link

3. ecDNA hubs drive cooperative intermolecular oncogene expression. Hung KL, Yost KE, Xie L, Shi Q, Helmsauer K, Luebeck J, Schöpflin R, Lange JT, Chamorro González R, Weiser NE, Chen C, Valieva ME, Wong IT, Wu S, Dehkordi SR, Duffy CV, Kraft K, Tang J, Belk JA, Rose JC, Corces MR, Granja JM, Li R, Rajkumar U, Friedlein J, Bagchi A, Satpathy AT, Tjian R, Mundlos S, Bafna V, Henssen AG, Mischel PS, Liu Z, Chang HY. Nature. 2021 Dec;600(7890):731-736. Link

4. B cell-specific XIST complex enforces X-inactivation and restrains atypical B cells. Yu B, Qi Y, Li R, Shi Q, Satpathy AT, Chang HY. Cell. 2021 Apr 1;184(7):1790-1803.e17. Link

5. ArchR is a scalable software package for integrative single-cell chromatin accessibility analysis. Granja JM, Corces MR, Pierce SE, Bagdatli ST, Choudhry H, Chang HY, Greenleaf WJ. Nature Genetics. 2021 Mar;53(3):403-411. Link

6. Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion. Satpathy AT, Granja JM, Yost KE, Qi Y, Meschi F, McDermott GP, Olsen BN, Mumbach MR, Pierce SE, Corces MR, Shah P, Bell JC, Jhutty D, Nemec CM, Wang J, Wang L, Yin Y, Giresi PG, Chang ALS, Zheng GXY, Greenleaf WJ, Chang HY. Nature Biotechnology. 2019 Aug;37(8):925-936. Link

7. The chromatin accessibility landscape of primary human cancers. Corces MR, Granja JM, Shams S, Louie BH, Seoane JA, Zhou W, Silva TC, Groeneveld C, Wong CK, Cho SW, Satpathy AT, Mumbach MR, Hoadley KA, Robertson AG, Sheffield NC, Felau I, Castro MAA, Berman BP, Staudt LM, Zenklusen JC, Laird PW, Curtis C; Cancer Genome Atlas Analysis Network, Greenleaf WJ, Chang HY. Science. 2018 Oct 26;362(6413):eaav1898. Link

8. Lineage-specific and single-cell chromatin accessibility charts human hematopoiesis and leukemia evolution. Corces MR, Buenrostro JD, Wu B, Greenside PG, Chan SM, Koenig JL, Snyder MP, Pritchard JK, Kundaje A, Greenleaf WJ, Majeti R, Chang HY. Nature Genetics. 2016 Oct;48(10):1193-203. Link

9. Unique features of long non-coding RNA biogenesis and function. Quinn JJ, Chang HY. Nature Reviews Genetics. 2016 Jan;17(1):47-62. Link

10. Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position. Buenrostro JD, Giresi PG, Zaba LC, Chang HY, Greenleaf WJ. Nature Methods. 2013 Dec;10(12):1213-8. Link

11. Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis. Gupta RA, Shah N, Wang KC, Kim J, Horlings HM, Wong DJ, Tsai MC, Hung T, Argani P, Rinn JL, Wang Y, Brzoska P, Kong B, Li R, West RB, van de Vijver MJ, Sukumar S, Chang HY. Nature. 2010 Apr 15;464(7291):1071-6. Link

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