Publications

SELECTED PUBLICATIONS

1, Xie, L., Dong, P., Chen, X. et al. 3D ATAC-PALM: super-resolution imaging of the accessible genome. Nat Methods (2020). https://doi.org/10.1038/s41592-020-0775-2

2. Wu S, Turner KM, Nguyen N, Raviram R, Erb M, Santini J, Luebeck J, Rajkumar U, Diao Y, Li B, Zhang W, Jameson N, Corces MR, Granja JM, Chen X, Coruh C, Abnousi A, Houston J, Ye Z, Hu R, Yu M, Kim H, Law JA, Verhaak RGW, Hu M, Furnari FB, Chang HY, Ren B, Bafna V, Mischel PS. Circular ecDNA promotes accessible chromatin and high oncogene expression. Nature. 2019, 575(7784):699-703.

3. Lee J, Termglinchan V, Diecke S, Itzhaki I, Lam CK, Garg P, Lau E, Greenhaw M, Seeger T, Wu H, Zhang JZ, Chen X, Gil IP, Ameen M, Sallam K, Rhee JW, Churko JM, Chaudhary R, Chour T, Wang PJ, Snyder MP, Chang HY, Karakikes I, Wu JC. Activation of PDGF pathway links LMNA mutation to dilated cardiomyopathy. Nature. 2019, 572(7769):335-340.

4. Chen X, Litzenburger UM, Wei Y, Schep AN, LaGory EL, Choudhry H, Giaccia AJ, Greenleaf WJ, Chang HY. Joint single-cell DNA accessibility and protein epitope profiling reveals environmental regulation of epigenomic heterogeneity. Nat Commun. 2018, 9(1):4590.

5. Chen YG, Kim MV, Chen X, Batista PJ, Aoyama S, Wilusz JE, Iwasaki A, Chang HY. Sensing self and nonself circular RNAs. Mol Cell. 2017, 67(2):228-238.e5.
 

6. Chen X, Shen Y, Draper W, Buenrostrol J D, Litzenburger U, Cho S W, Satpathy A, Carter A C, Ghosh R P, East-Seletsky A, Doudna J A, Greenleaf W J, Liphardt J T, Chang H Y. ATAC-see reveals the accessible genome by transposase-mediated imaging and sequencing. Nature Methods. 2016, 13(12):1013-1020.
 

7. Zhao H, Sifakis E, Sumida N, Millán-Ariño L, Scholz B, Svensson P, Chen X, Ronnegren A, Lima C, Varnoosfaderani F, Shi C, Loseva O, Yammine S, Israelsson M, Rathje l, Németi B, Fredlund E, Helleday T, Imreh M, Göndör A. PARP1- and CTCF-mediated interactions between active and repressed chromatin at the lamina promote oscillating transcription. Mol Cell. 2015, 59(6):984-97.
 

8. Chen X, Yammine S, Shi C, Tark-Dame M, Göndör A, Ohlsson R. The visualization of large organized chromatin domains enriched in the H3K9me2 mark within a single chromosome in a single cell. Epigenetics. 2014, 9(11):1439-45.
 

9. Chen X, Shi C, Yammine S, Göndör A, Rönnlund D, Fernandez-Woodbridge A, Sumida N, Widengren J, Ohlsson R. Chromatin in situ proximity (ChrISP): single-cell analysis of chromatin proximities at a high resolution. Biotechniques. 2014, 56(3):117-8, 120-4.