Selected Xu Lab Publications

 2017

Liu, X., Zhang, Y., Chen, Y., Li, M., Zhou, F.#, Li ,K., Cao, H., Ni, M., Liu, Y., Gu, Z., Dickerson, K.E., Xie, S., Hon, G.C., Xuan, Z., Zhang, M.Q., Shao, Z., and Xu, J#. (2017) In situ capture of chromatin interactions by biotinylated dCas9. Cell  170, 1028–1043.  (PudMed)  #corresponding author

Liu, X., Zhang, Y., Ni, M., Cao, H., Signer, R.A.J., Li, D., Li, M., Gu, Z., Hu, Z., Dickerson, K.E., Weinberg, S.E., Chandel, N.S., DeBerardinis, R.J., Zhou, F.#, Shao, Z.#., and Xu, J.#. (2017). Mitochondrial biogenesis in erythropoiesis is regulated by mTORC1-mediated protein translation. Nat. Cell Biol. 19, 626-638. (PubMed) #corresponding author

Ansó, E., Weinberg, S.E., Diebold, L.P., Thompson, B.J., Malinge, S., Schumacker, P.T., Liu, X., Zhang, Y., Shao, Z., Steadman, M., Marsh, K.M., Xu J, Crispino, J.D., and Chandel, N.S. (2017). Mitochondrial respiratory chain is essential for hematopoietic stem cell function. Nat. Cell Biol19, 614- 625. (PubMed)

Kim, J., Hu, Z., Cai, L., Li, K., Choi, E., Faubert, B., Bezwada, D., Rodriguez-Canales, J., Villalobos, P., Lin, Y.F., et al. (2017). CPS1 maintains pyrimidine pools and DNA synthesis in KRAS/LKB1-mutant lung cancer cells. Nature 546, 168-172. (PubMed)

2016

Luc, S., Huang, J., McEldoon, J.L., Somuncular, E., Li, D., Rhodes, C., Mamoor, S., Hou, S., Xu, J.#, and Orkin, S.H.#. (2016). Bcl11a-deficiency leads to hematopoietic stem cell defects with aging-like phenotype. Cell Rep. 16, 3181-3194. (PubMed) #corresponding author

Sun, X., Chuang, J.C., Kanchuala, M., Wu, L., Celen, C., Li, L., Liang, H., Zhang, S., Maples, T., Nguyen, L.H., Wang, S.C., Sanger, R.A., Sorouri, M., Nassour, I., Liu, X., Xu, J., et al. (2016). Suppression of the SWI/SNF component Arid1a promotes mammalian regeneration. Cell Stem Cell 18, 456-466. (PubMed)

Huang, J., Liu, X., Li, D., Shao, Z., Cao, H., Zhang, Y., Trompouki, E., Bowman, T.V., Zon, L.I., Yuan, G.C., Orkin, S.H.#., and Xu, J.#. (2016). Dynamic control of enhancer repertoires drives lineage and stage-specific transcription during hematopoiesis. Dev. Cell 36, 9—23. (PubMed) #corresponding author

Masuda, T., Wang, X., Maeda, M., Canver, M.C., Sher, F., Funnell, A.P., Fisher, C., Suciu, M., Martyn, G.E., Norton, L.J., Zhu, C., Kurita, R., Nakamura, Y., Xu, J., et al. (2016). Transcription factors LRF and BCL11A independently repress expression of fetal hemoglobin. Science 351, 285-289. (PubMed)

2015

Das, P.P., Hendrix, D.A., Apostolou, E., Buchner, A.H., Canver, M.C., Beyaz, S., Ljuboja, D., Kuintzle, R., Kim, W., Karnik, R., Shao, Z., Xie, H., Xu, J., et al. (2015). PRC2 Is Required to Maintain Expression of the Maternal Gtl2-Rian-Mirg Locus by Preventing De Novo DNA Methylation in Mouse Embryonic Stem Cells. Cell Rep. 12, 1456-1470. (PubMed)

Xu, J.*, Shao, Z.*, Li, D., Xie, H., Kim, W., Huang, J., Taylor, J.E., Pinello, L., Glass, K., Jaffe, J.D., et al. (2015). Developmental control of Polycomb subunit composition by GATA factors mediates a switch to non-canonical functions. Mol. Cell 57, 304—316. (PubMed) *co-first author

Ishikawa, Y., Maeda, M., Pasham, M., Aguet, F., Tacheva-Grigorova, S.K., Masuda, T., Yi, H., Lee, S.U., Xu, J., Teruya-Feldstein, J., et al. (2015). Role of the clathrin adaptor PICALM in normal hematopoiesis and polycythemia vera pathophysiology. Haematologica 100, 439-451. (PubMed)

2014

Li, Y., Esain, V., Teng, L., Xu, J., Kwan, W., Frost, I.M., Yzaguirre, A.D., Cai, X., Cortes, M., Maijenberg, M.W., et al. (2014). Inflammatory signaling regulates embryonic hematopoiesis. Genes Dev. 28, 2597-2612. (PubMed)

Pinello, L.*, Xu, J.*, Orkin, S.H., and Yuan, G.C. (2014). Analysis of chromatin state plasticity identifies cell-type specific regulators of H3K27me3 patterns. Proc. Natl. Acad. Sci. U. S. A. 111, E344-E353. *co-first author (PubMed)

Maroz, A., Stachorski, L., Emmrich, S., Reinhardt, K., Xu, J., Shao, Z., Käbler, S., Dertmann, T., Hitzler, J., Roberts, I., et al. (2014). GATA1s induces hyperproliferation of eosinophil precursors in Down syndrome transient leukemia. Leukemia 28, 1259-1270. (PubMed)

Xie, H., Xu, J.Hsu, J.H., Nguyen, M., Fujiwara, Y., Peng, C., and Orkin, S.H. (2014). Polycomb repressive complex 2 regulates normal hematopoietic stem cell function in a developmental-stage-specific manner. Cell Stem Cell 14, 68—80. (PubMed)

2013

Bauer, D.E., Kamran, S.C., Lessard, S., Xu, J., Fujiwara, Y., Lin, C., Shao, Z., Canver, M.C., Smith, E.C., Pinello, L., et al. (2013). An erythroid enhancer of BCL11A subject to genetic variation determines fetal hemoglobin level. Science 342, 253—257. (PubMed)

Xu, J., Bauer, D.E., Kerenyi, M.A., Vo, T.D., Hou, S., Hsu, Y.J., Yao, H., Trowbridge, J.J., Mandel, G., and Orkin, S.H. (2013). Corepressor-dependent silencing of fetal hemoglobin expression by BCL11A Proc. Natl. Acad. Sci. U. S. A. 110, 6518—6523. (PubMed)

Guo, G., Luc, S., Marco, E., Lin, T.W., Peng, C., Kerenyi, M.A., Beyaz, S., Kim, W., Xu, J., Das, P.P., et al. (2013). Mapping cellular hierarchy by single cell analysis of the cell surface repertoire. Cell Stem Cell 12, 492—505. (PubMed)

2012

Xu, J.and Smale S.T. (2012). Designing an enhancer landscape. Cell 151, 929—931. (PubMed)

Xu. J.*., Shao, Z.*., Glass, K., Bauer, D.E., Pinello, L., Handel, B.V., Hou, S., Stamatoyannopoulos, J.A., Mikkola, H.K.A., Yuan, G.C., and Orkin, S.H. (2012). Combinatorial assembly of developmental stage-specific enhancers controls gene expression programs during human erythropoiesis. Dev. Cell 23, 796-811. (PubMed) *co-first author

Sankaran, V.G., Ludwig, L.S., Sicinska, E., Xu, J., Bauer, D.E., Eng, J.C., Patterson, H.C., Metcalf, R.A., Natkunam, Y., Orkin, S.H., et al. (2012). Cyclin D3 coordinates the cell cycle during differentiation to regulate erythrocyte size and number. Gen. Dev. 26, 2075-2087. (PubMed)

Chan, K.S., Xu, J., Wardan, H., McColl, B., Orkin, S., and Vadolas, J. (2012). Generation of a genomic reporter assay system for analysis of g- and b-globin gene regulation. FASEB J. 26, 1736-1744. (PubMed)

2011

Xu, J., and Orkin, S.H. (2011). The erythroid/myeloid lineage fate paradigm takes a new player. EMBO J. 30, 983-985. (PubMed)

Xu, J., Peng, C., Sankaran, V.G., Shao, Z., Esrick, E.B., Chong, B.G., Ippolito, G.C., Fujiwara, Y., Ebert, B.L., Tucker, P.W., et al. (2011). Correction of sickle cell disease in adult mice by interference with fetal hemoglobin silencing. Science 334, 993—996. (PubMed)

Sankaran, V.G, Xu, J., Byron, R., Greisman, H.A., Fisher, C., Weatherall, D.J., Sabath, D.E., Groudine, M., Orkin, S.H., Premawardhena, A., et al. (2011). A functional element necessary for fetal hemoglobin silencing. N. Engl. J. Med. 365, 807-814. (PubMed)

Woo, A.J., Kim, J., Xu, J., Huang, H., and Cantor, A.B. (2011). Role of ZBP-89 in human globin gene regulation and erythroid differentiation. Blood 118, 3684-3693. (PubMed)

2010

Sankaran, V.G., Xu, J., and Orkin, S.H. (2010). Transcriptional silencing of fetal hemoglobin by BCL11A. Ann. N. Y. Acad. Sci. 1202, 64-68. (PubMed)

Sankaran, V.G.*, Xu, J.*, and Orkin, S.H. (2010). Advances in the understanding of haemoglobin switching. Br J Haematol 149, 181—194. Review. (PubMed) *co-first author

Snow, J.W., Kim, J., Currie, C.R., Xu, J., and Orkin, S.H. (2010). Sumoylation regulates interaction of FOG1 with CTBP. J. Biol. Chem. 285, 28064-28075. (PubMed)

Xu, J., Sankaran, V.G., Ni, M., Menne, T.F., Puram, R.V., Kim, W., and Orkin, S.H. (2010). Transcriptional silencing of g-globin by BCL11A involves long-range interactions and cooperation with SOX6. Gen. Dev. 24, 783—798. (PubMed)

2009

Xu, J., Watts, J.A., Pope, S.D., Gadue, P., Kamps, M., Plath, K., Zaret, K.S., and Smale, S.T. (2009). Transcriptional competence and the active marking of tissue-specific enhancers by defined transcription factors in embryonic and induced pluripotent stem cells. Gen. Dev. 23, 2824—2838. (PubMed)

Sankaran, V.G.*., Xu, J.*., Ragoczy, T., Ippolito, G.C., Walkley, C.R., Maika, S.D., Fujiwara, Y., Ito, M., Groudine, M., Bender, M.A., Tucker, P.W., and Orkin, S.H. (2009). Developmental and species-divergent globin switching are driven by BCL11A. Nature 460, 1093-1097. (PubMed) *co-first author

Papathanasiou, P., Attema, J.L., Karsunky, H., Xu, J., Smale, S.T., and Weissman, I.L. (2009). Evaluation of the long-term reconstituting subset of hematopoietic stem cells with CD150. Stem Cells 27, 2498-2508. (PubMed)

2008

Zaret, K.S., Watts, J., Xu, J., Wandzioch, E., Smale, S.T., and Sekiya, T. (2008). Pioneer factors, genetic competence, and inductive signaling: programming liver and pancreas progenitors from the endoderm. Cold Spr. Harbor Symp. Quant. Biol. 73, 119-126. (PubMed)

Sankaran, V.G., Menne, T.F., Xu, J., Akie, T.E., Lettre, G., Handel, B.V., Mikkola, H.K.A., Hirschhorn, J.N., Cantor, A.B., and Orkin, S.H. (2008). Human fetal hemoglobin expression is regulated by the development stage-specific repressor BCL11A. Science 322, 1839—1842. (PubMed)

2007

 Xu, J., Pope, S.D., Jazirehi, A.R., Attema, J.L., Papathanasiou, P., Watts, J.A., Zaret, K.S., Weissman, I.L., and Smale, S.T. (2007). Pioneer factor interactions and unmethylated CpG dinucleotides mark silent tissue-specific enhancers in embryonic stem cells. Proc. Natl. Acad. Sci. U. S. A. 104, 12377—12382. (PubMed)

Attema, J.L., Papathanasiou, P., Forsberg, E.C., Xu, J., Smale, S.T., and Weissman, I.L. (2007). Epigenetic characterization of hematopoietic stem cell differentiation using miniChIP and bisulfite sequencing analysis. Proc. Natl. Acad. Sci. U. S. A. 104, 12371-12376. (PubMed)

Zhou, L., Nazarian, A.A., Xu, J., Tantin, D., Corcoran, L.M., and Smale, S.T. (2007). An inducible enhancer required for Il12b promoter activity in an insulated chromatin environment. Mol. Cell. Biol. 27, 2698-2712. (PubMed)

Before 2007

Qin, W., Hu, J., Guo, M., Xu, J., Li, J., Yao, G., Zhou, X., Jiang, H., Zhang, P., Shen, L., et al. (2003). BNIPL-2, a novel homologue of BNIP-2, interacts with Bcl-2 and Cdc42GAP in apoptosis. Biochem. Biophys. Res. Commun. 308, 379-385. (PubMed)

Yu, J., Ni, M., Xu, J., Zhang, H., Gao, B., Gu, J., Chen, J., Zhang, L., Wu, M., Zhen, S., et al. (2002). Methylation profiling of twenty promoter-CpG islands of genes which may contribute to hepatocellular carcinogenesis. BMC Cancer 2, 29. (PubMed)

Guo, J.Y.*, Xu, J.*, Mao, D.Q., Fu, L.L., Gu, J.R., and De Zhu, J. The promoter analysis of the human C17orf25 gene, a novel 17p13.3 gene. (2002). Cell Res. 12, 339-352. *co-first author (PubMed)

Xu, J., De Zhu, J., Ni, M., Wan, F., and Gu, J.R. (2002). The ATF/CREB site is the key element for transcription of the human RNA methyltransferase like 1 (RNMTL1) gene, a newly discovered 17p13.3 gene. Cell Res. 12, 177-197. (PubMed)


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