2017

• Raymond M. Wang, Jingjin He, Yang Xu, Karen L. Christman. (2017). Humanized mouse model for evaluating biocompatibility and human immune cell interactions to biomaterials. Drug Discovery Today: Disease Models.
• Kim J, Xu S, Xiong L, Yu L, Fu X, Xu Y. (2017). SALL4 promotes glycolysis and chromatin remodeling via modulating HP1α-Glut1 pathway. Oncogene [Epub ahead of print].
• Liu X, Li W, Fu X, Xu Y.(2017). The Immunogenicity and Immune Tolerance of Pluripotent Stem Cell Derivatives. Front. Immunol. 8:645.
• Saunders A, Li D, Faiola F, Huang X, Fidalgo M, Guallar D, Ding J, Yang F, Xu Y, Zhou H, Wang J. (2017).Context-Dependent Functions of NANOG Phosphorylation in Pluripotency and Reprogramming. Stem Cell Reports.[Epub ahead of print]
• Wang, RM., Johnson, TD., He, J., Rong, Z., Wong, M., Nigam, V., Behfar, A., Xu, Y.,& Christman, KL. (2017). Humanized mouse model for assessing the human immune response to xenogeneic and allogeneic decellularized biomaterials. Biomaterials. 129:98-110.
• Zhu, W., Qu, X., Zhu, J., Ma, X., Patel, S., Liu, J., Wang, P., Sun, C., Lai, E., Gou, M., Xu, Y., Zhang, K.,& Chen, S. (2017). Direct 3D bioprinting of prevascularized tissue constructs with complex microarchitecture. Biomaterials. 124:106-115.
• He, J., Rong, Z., Fu, X., & Xu, Y. (2017). A safety checkpoint to eliminate cancer risk of the immune evasive cells derived from human embryonic stem cells. Stem Cells [Epub ahead of print].
• Fu, X., Cui, K., Yi, Q., Yu, L., & Xu, Y. (2017). DNA repair mechanisms in embryonic stem cells. Cell Mol Life Sci. 74(3): 487-493. 

2016

• Xu, S., Chen, W., Xie, Q., & Xu, Y. (2016). Obacunone activates the Nrf2-dependent antioxidant responses. Protein& Cell 7(9): 684-8. 
• Todorova, D., Kim, J., Hamzeinejad, S., He, J., & Xu, Y. (2016). Immune Microenvironment Determines the Immunogenicity of iPSC Derivatives. Stem Cells 34(2):510-5.
• Kim, J., Liu, Y., Qiu, M., & Xu, Y. (2016). Pluripotency factor Nanog is tumorigenic by deregulating DNA damage response in somatic cells. Oncogene 35(10):1334-40.

2015

• Zhao, T., Zhang, Z.N., Westenskow, P.D., Todorova, D., Hu, Z., Lin, T., Rong, Z., Kim, J., He, J., Wang, M., Clegg, D.O., Yang, Y.G., Zhang, K., Friedlander, M., & Xu, Y. (2015).Humanized Mice Reveal Differential Immunogenicity of Cells Derived from Autologous Induced Pluripotent Stem Cells. Cell Stem Cell 17(3):353-9.
• Xiong, J., Todorova, D., Su, NY., Kim, J., Lee, PJ., Shen, Z., Briggs, SP., & Xu, Y. (2015). Stemness factor Sall4 is required for DNA damage response in embryonic stem cells. J Cell Biol. 208(5):513-20. 
• Zhu, S., Rong, Z., Lu, X., Xu, Y., & Fu, X.(2015). Gene Targeting Through Homologous Recombination in Monkey Embryonic Stem Cells Using CRISPR/Cas9 System. Stem Cells Dev. 24(10):1147-9. 

2014

• Rong, Z., Zhu, S., Xu, Y., & Fu, X. (2014). Homologous recombination in human embryonic stem cells using CRISPR/Cas9 nickase and a long DNA donor template. Protein& Cell 5(4): 258-60. 

• Chung, S.K., Zhu, S., Xu, Y., & Fu, X. (2014). Functional analysis of the acetylation of human p53 in DNA damage responses. Protein& Cell 5(7): 544-51. 

• Li, Z., Lu, H., Yang, W., Yong, J., Zhang, ZN., Zhang, Kun., Deng, H.,& Xu, Y. (2014). Mouse SCNT ESCs have lower somatic mutation load than syngeneis iPSCs. Stem Cell Reports 2(4):399-405.

• Kim, J., Nakasaki M., Todorova D., Lake B., Jamora C., & Xu Y. (2014). p53 induces skin aging by depleting Blimp1(+) sebaceous gland cells. Cell Death Disease 5:e1141.

• Rong, Z., Wang, M., Hu, Z., Stradner, M., Zhu, S., Kong, H., Yi, H., Goldrath, A., Yang, YG., Xu, Y., & Fu, X. (2014).  An Effective Approach to Prevent Immune Rejection of Human ESC-Derived Allografts. Cell Stem Cell 14(1):121-30.

 

                                      2013

• Zhang, ZN., Chung, SK., Xu, Z., & Xu, Y. (2013). Oct4 maintains the pluripotency of human embryonic stem cells by inactivating p53 through Sirt1-mediated deacetylation. Stem Cells 32(1):157-65.
• Lu, X., Mazur, S J., Lin, T., Appella, E., & Xu, Y. (2013). The pluripotency factor Nanog promotes breast cancer tumorigenesis and metastasis. Oncogene 33(20):2655-64.

2012

• Westenskow, P.D., Moreno, S.K., Krohne, T.U., Kurihara, T., Zhu, S., Zhang, Z.N., Zhao, T., Xu, Y., Ding, S., & Friedlander, M. (2012). Using flow cytometry to compare the dynamics of photoreceptor outer segment phagocytosis in iPS-Derived RPE cells. Investigative Opthalmology and Visual Science 53(10): 6282-6290.
• Rong, Z., Fu, X., Wang, M., & Xu, Y. (2012). A scalable approach to prevent teratoma formation of human embryonic stem cells. J Biol Chem 287(39):32338-32345.
• Fu, X. & Xu, Y. (2012). Challenges to the clinical application of pluripotent stem cells: Towards genomic and functional stability. Genome Med 4(6):55.
• Won, K.J., Xu, Z., Zhang, X., Whitaker, J.W., Shoemaker, R., Ren, B., Xu, Y., Wang, W. (2012). Global identification of transcriptional regulators of pluripotency and differentiation in embryonic stem cells. Nucleic Acids Res 40(17):8199-209.
• Lu, X., Liu, D., and Xu, Y. (2012). The gain-of-function of p53 cancer mutant in promoting mammary tumorigenesis. Oncogene 32(23):2900-2906.
• Zhang, Z. and Xu, Y. (2012). Progress and bottleneck in induced pluripotency. Cell Regeneration 1:5.
• Boyd, A.S., Rodrigues, N.P., Lui, K.O., Fu, X., and Xu, Y. (2012). Concise review: Immune recognition of induced pluripotent stem cells. Stem Cells 30(5): 797-803.
• Chen, Z., Zhao, T., and Xu, Y. (2012). The genomic stability of induced pluripotent stem cells. Protein Cell 3(4): 271-7.
• Lake, B., Fink, J., Klemetsaune, L., Fu, X., Jeffers, J., Zambetti, G. and Xu Y. (2012). Context-dependent enhancement of induced pluripotent stem cell reprogramming by silencing Puma. Stem Cells 30(5): 888-897.
• Xu, Z., Hou, T., Li, N., Xu, Y., and Wang, W. (2012). Proteome-wide detection of AbI1 SH3-binding peptides by integrating computational prediction and peptide microarray. Mol Cell Proteomics 11(1):O111.0101389.

   

  2011

• Zhao, T., Zhang, Z.N., Rong, Z., and Xu, Y. (2011). Immunogenicity of induced pluripotent stem cells. Nature 474: 212-215. (42).
• Fu, X. and Xu, Y. (2011). Self-renewal and scalability of human embryonic stem cells for human therapy. Regen. Med. 6: 327-34.

2010

• Liu, D., Xu, Y. (2010). p53, oxidative stress and aging. Antioxid Redox Signal. 15(6):1669-78.
• Liu, D., Ou, L., Clemenson Jr, G.D., Chao, C., Lutske, M.E., Zambetti, G.P., Gage, F.H. and Xu, Y. (2010). Puma is required for p53-induced depletion of adult stem cells. Nat. Cell Biol. 12:993-8.
• Moretto-Zita, M., Jin1, H., Zhouxin Shen, Z., Tongbiao Zhao, T., Briggs, S.P. and Xu, Y. (2010). Phosphorylation stabilizes Nanog by promoting its interaction with Pin1. Proc Natl Acad Sci USA. 107(30):13312-7.
• Song, H. and Xu, Y. (2010). Disease Research and Drug Development Models Based on Genetically Altered Human Embryonic Stem Cells. Discov. Med. 9(49):500-503.
• Lee, K., Li, M,  Michalowski, A.M, Zhang, X., Liao, H.,  Chen, L.,  Xu, Y., Wu, X. and Huang, J. (2010). A genome-wide study identifies the Wnt signaling pathway as a major target of p53 in murine embryonic stem cells, Proc Natl Acad Sci USA. 107:69-74.
• Zhao, T. and Xu, Y.  (2010). p53 and Stem cells: new developments and new concerns. Trends Cell Biol. 20: 170-175.
• Jankovic M, Robbiani DF, Dorsett Y, Eisenreich T, Xu Y, Tarakhovsky A, Nussenzweig A, Nussenzweig MC. (2010). Role of the translocation partner in protection against AID-dependent chromosomal translocations. Proc Natl Acad Sci U S A. 107: 187-192.
• Song, H., Chung, S.K. and Xu, Y. (2010). Modeling disease in human ESCs using an efficient BAC-based homologous recombination system. Cell Stem Cell 6: 80-89.
• Liu, D.P., Song, H. and Xu, Y. (2010) A common Gain of function of p53 cancer mutants in inducing genetic instability. Oncogene 29:949-56.

2009

• Gaidarenko, O. and Xu, Y. (2009). Transcription activity is required for p53-dependent tumor suppression. Oncogene 28:4397-401.
• Deng W. and Xu, Y. (2009). Genome integrity: linking pluripotency and tumorgenicity. Trends Genet. 25:425-7.
• Hou, T., Xu, Z., Zhang, W., McLaughlin, W.A., Case, D.A., Xu, Y. and Wang W. (2009). Characterization of domain-peptide interaction interface: a generic structure-based model to decipher the binding specificity of SH3 domains. Mol Cell Proteomics 8:639-49.

2008

• Xu, Y. (2008). Induction of genetic instability by p53 cancer mutants. Oncogene 27:3501-7.
• Hewitt, S.L., Farmer, D., Marszalek, K., Cadera, E., Liang, H.E., Xu, Y., Schlissel, M.S. and Skok, J.A. (2008). Association between the Igk and Igh immunoglobulin loci mediated by the 3' Igk enhancer induces 'decontraction' of the Igh locus in pre-B cells. Nat Immunol. 9:396-404.
• Jenkins LM, Mazur SJ, Rossi M, Gaidarenko O, Xu Y and Appella E. (2008). Quantitative proteomics analysis of the effects of ionizing radiation in wild type and p53 K317R knock-in mouse thymocytes. Mol Cell Proteomics. 7:716-27.

2007

• Song, H. and Xu, Y. (2007). Gain of function of p53 cancer mutants in disrupting critical DNA damage response pathways. Cell Cycle 6: 1570-1573.
• Song,J., Chao, C. and Xu, Y. (2007). Ser18 and Ser23 phosphorylation plays synergistic roles in activating p53-dependent neuronal apoptosis. Cell Cycle 6: 1412-1414.
• Song, H., Hollstein, M. and Xu, Y. (2007) p53 gain-of-function cancer mutants induce genetic instability by inactivating ATM. Nat. Cell. Biol. 9:573-80.

2006

• Xu, Y. (2006) DNA Damage: a Trigger of Innate Immunity but Essential for Adaptive Immune Homeostasis.  Nature Reviews Immunology, 6:261-70.
• Chao, C., Wu, Z., Mazur, SJ, Borges, H., Rossi, M., Lin, T., Wang, JYJ, Anderson, CW, Appella, E and Xu, Y. (2006).  Acetylation of Mouse p53 at Lysine 317 Negatively Regulates p53 Apoptotic Activities after DNA Damage.  Mole. Cell. Biol. 26, 6859-69.
• Feng, L. Hollstein, M and Xu, Y. (2006) Ser46 Phosphorylation Regulates p53-dependent Apoptosis and Celular Senescence.  Cell Cycle, 5(23):2812-9
• Inlay, M.A., Gao,H., Lin, T., and Xu, Y. (2006). Critical roles of the immunoglobulin heavy and kappa light chain intronic enhancers in maintaining the sequential rearrangement of immunoglobulin loci. J. of Exp. Med., June 19th [Epub ahead of print].
• Inlay, M.A, Gao, H., Odegard, V.H., Lin, T., Schatz, D.G. and Xu, Y. (2006). Roles of the immunoglobulin kappa light chain intronic and 3' enhancers in Igk somatic hypermutation. J. of Immunol. 177, 1146-1151.
• Chao, C., Herr, D., Chun, J. and Xu, Y. (2006). Phosphorylation of p53 at Ser18 and 23 is required for p53-dependent apoptosis and tumor suppression in aging animals. EMBO J. 25, 2615-22.

2005


• Xu, Y. (2005). A New Role of p53 in Maintaining Genetic Stability in Embryonic Stem Cells. Cell Cycle 4, 3.
• Lin, T., Chao, C., Saito, S., Muzar, S., Murphy, M., Appela, E. and Xu, Y. (2005). p53 induces differentiation of mouse embryonic stem cells by suppressing Nanog expression. Nat. Cell Biol. 7, 165-171.
• Jones, R.G., Plas, D.R., Kubek, S., Buzzai, M., Mu, J., Xu, Y., Birnbaum, M.J. and Thompson, C.B. (2005). AMP-Activated Protein Kinase Induces a p53-Dependent Metabolic Checkpoint. Mol. Cell 18, 283-293.
• Feng, L., Lin, T., Uranishi, H., Gu, W., and Xu, Y. (2005). Functional analysis of the posttranslational modifications at p53 C-terminus in regulating p53 stability and activity. Mol. Cell. Biol. 25:5389-5395.
• Kang, J., Ferguson, D., Song, H., Bassing, C., Eckersdorff, M., Alt, F.W. and Xu, Y. (2005). Functional interaction of H2AX, NBS1 and p53 in ATM-dependent DNA damage responses and tumor suppression. Mol. Cell.Biol. 25(2), 661-670.

2004


• Borges, HL, Chao, C., Xu, Y, Linden, R. and Wang J.Y. (2004). Rdiation-Induced Apoptosis in Developing Mouse Retina Exhibits Dose-Dependent Requirement for ATM Phosphorylation of p53.  Cell Death Differ.  11, 494-502.
• Inlay, M., Tian, H., Lin, T. and Xu, Y. (2004). Functional dissection of the immunoglobulin kappa light chain intronic enhancer reveals important roles for E protein binding sites in activating VkappaJkappa rearrangement. J. Exp. Med. 200, 1205-1211. 

2003


• Inlay, M. and Xu, Y. (2003). Epigenetic Regulation of Antigen Receptor Rearrangement. Clinical Immunology, 109, 29-36. 
• Chao, C., Hergenhahn, M., Kaeser, M.D.,Wu, Z., Saito, S., Iggo, R., Hollstein, M., Appella, E. and Xu, Y. (2003). Cell type- and promoter-specific roles of Ser18 phosphorylation in Regulating p53 responses. J Biol. Chem. 278, 41028-41033. 
• Xu Y. (2003). Regulation of p53 Responses by Posttranslational Modifications. Cell Death Differ. 10, 400-403. 

2002


• Inlay, M., Alt, F.W., Baltimore, D., and Xu, Y. (2002). Essential roles of the kappa light chain intronic enhancer and 3' enhancer in kappa rearrangement and demethylation. Nat. Immunol. 3:463-468. 
• Kang, J., Bronson, R.T. and Xu, Y. (2002).  Targeted Disruption of NBS1 Reveals Its Roles in Mouse Development and DNA Repair. EMBO J. 21, 1447-1455
• Wu, Z., Earle, J., Saito, S., Anderson, C.W., Appella, E., and Xu, Y. (2002). Mutation of Mouse p53Ser23 and the response to DNA damage. Mol. Cell. Biol. 22, 2441-2449.
• Woo, R.A., Jack, M.T., Xu, Y., Burma, S., Chen, D.J., Lee, P.W. (2002). DNA damage-induced apoptosis requires the DNA-dependent protein kinase, and is mediated by the latent population of p53. EMBO J. 21, 3000-3008.
• Chin, A. I., Dempsey, P. W., Bruhn, K., Miller, J. F., Xu, Y., and Cheng, G. (2002). Involvement of Receptor Interacting Protein 2 in Innate and Adaptive Immune Responses. Nature 416, 190-194. 

2001


• Post, S., Weng, Y-C., Cimprich K., Chen, L. B., Xu Y., and Lee, E.Y.-H.P. (2001). Phosphorylation serines 635 and 645 of human Rad17 is cell cycle regulated and is required for G1/S checkpoint activation in response to DNA damage. Proc. Natl. Acad. Sci. USA 98, 13102-13107. 
• Sekiguchi, J., Ferguson, D.O., Chen, H.T., Yang, E.M., Earle, J., Frank, K., Whitlow, S., Gu, Y.S., Xu, Y., Nussenzweig, A. and Alt, F.W. (2001). Genetic interactions between ATM and the nonhomologous end-joining factors in genomic stability and development. Proc. Natl. Acad. Sci. USA 98, 3243-3248.

2000


• Chao, C., Saito, S., Anderson, C.W., Appella, E. and Xu, Y.  (2000). Phosphorylation of Murine p53 at Ser18 regulates the p53 Responses to DNA Damage. Proc. Natl. Acad. Sci. USA 97, 11936-11941.
• Chao, C., Saito, S., Kang, J., Anderson, C.W., Appella, E. and Xu, Y. (2000). p53 transcriptional activity is essential for p53-dependent apoptosis following DNA damage. EMBO J., 19, 4967-4975.
• Ellmeier, W., Jung, S., Sunshine, M.J., Hatam, F., Xu, Y., Baltimore, D., Mano, H., Littman, D.R. (2000). Severe B cell deficiency in mice lacking the tec kinase family members tec and Btk. J Exp Med. 192, 1611-1624.
• Chao, C., Yang, E.M. and Xu, Y. (2000). Rescue of defective T cell development and function in Atm-/- mice by a functional Tcrab transgene. J. Immunol. 164, 345-349.

1999


• Xu, Y. (1999) Involvement of ATM in lymphoid development and tumorigenesis. Adv. in Immunol., 72, 179-189.
• Kuljis, R.O., Chen, G., Lee, E.Y., Aguila, M.C. and Xu Y. (1999). ATM immunolocalization in mouse neuronal endosomes: implications for ataxia-telangiectasia. Brain Res. 25, 842(2):351-8
• Chen, G., Yuan, S.S., Liu, W., Xu, Y., Trujillo, K., Song, B., Cong, F., Goff, S.P., Wu, Y., Arlinghaus, R., Baltimore, D., Gasser, P.J., Park, M.S., Sung, P. and Lee, E.Y.(1999). Radiation-induced assembly of Rad51 and Rad52 recombination complex requires ATM and c-Abl. J Biol. Chem. 274(18):12748-52.

1998


• Xu, Y., Yang, E.M., Brugarolas, J., Jacks, T., and Baltimore, D. (1998). Involvement of p53 and p21 in the cellular defects and tumorigenesis in Atm-/- mice. Mol. Cell. Biol. 18, 4385-4390.

1997


• Plug, A.W., Petes, A.H.F.M., Xu, Y., Keegan, K.S., Hoekstra, M.F., Baltimore, D., Boer, P. D., and Ashley, T. (1997). Involvement of ATM and RPA in meiotic chromosome synapsis and recombination.  Nature Genetics 17(4): 457-461.
• Kuljis, R.O., Xu, Y., Aguila, M.C., Baltimore D. (1997). Degeneration of neurons, synapses, and neuropil and glial activation in a murine Atm knockout model of ataxia-telangiectasia. Proc Natl Acad Sci USA 94(23):12688-93.
• Baskaran, R., Wood, L.D., Whitaker, L.L., Canman, C.E., Morgan, S.E., Xu, Y., Barlow, C., Baltimore, D., Wynshaw-Boris, A., Kastan, M.B., and Wang, J.Y.J. (1997). Ataxia telangiectasia mutant protein acyivates c-abl tyrosine kinase in response to ionizing radiation. Nature 387, 516-520.
• Porter, F.D., Drago, J., Xu, Y., Cheema, S.S., Wassif C, Huang SP, Lee E, Grinberg A, Massalas JS, Bodine D, Alt F, Westphal H. (1997). Lhx2, a LIM homeobox gene, is required for eye, forebrain, and definitive erythrocyte development. Development 124(15):2935-44.

1996


• Xu, Y. and Baltimore, D. (1996). Dual roles of ATM in the cellular response to radiation and in cell growth control. Genes & Development 10, 2401-2410.
• Xu. Y., Ashley, T., Brainerd, E.E., Bronson, R.T., Meyn, S.M., and Baltimore, D. (1996). Targeted disruption of ATM leads to growth retardation, chromosomal fragmentation during meiosis, immune defects and thymic lymphoma. Genes & Development 10, 2411-2422.
• Xu, Y., Cheng, G., and Baltimore, D. (1996). Targeted disruption of TRAF3 leads to postnatal lethality and defective T-dependent immune responses. Immunity 5, 407-415.
• Xu, Y., Davidson, L., Alt. F.W., and Baltimore, D.(1996). Deletion of the Igk light chain intronic enhancer/matrix attachment region impairs but does not abolish VkJk_rearrangement. Immunity 4, 377-385.
• Xu, Y., Davidson, L., Alt, F.W., and Baltimore, D. (1996). Function of the pre-Ta chain in the T cell development and allelic exclusion at the TCRb locus.  Proc. Natl. Acad. Sci. USA 93, 2169-2173.

1993


• Xu, Y., Baldassare, M., Fisher, P., Rathbun, G., Oltz, E. M., Yancopoulos, G. D., Jessell, T. M., and Alt, F. W. (1993). LH-2: a LIM/homeodomain gene expressed in developing lymphocytes and neural cells. Proc. Natl. Acad. Sci. USA 90, 227-31.
• Chen, J., Trounstine, M., Kurahara, C., Young, F., Kuo, C.C., Xu, Y., Loring, J.F., Alt, F.W., Huszar, D. (1993). B cell development in mice that lack one or both immunoglobulin kappa light chain genes. EMBO J. 12, 821-30.