Yang Xu

Summary

Affiliation: University of California
Country: USA

Publications

  1. ncbi request reprint Stem Cell Therapy and Immunological Rejection in animal models
    Xiaowei Jin
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Curr Mol Pharmacol . 2015
  2. pmc Important roles for E protein binding sites within the immunoglobulin kappa chain intronic enhancer in activating Vkappa Jkappa rearrangement
    Matthew A Inlay
    Div of Biological Sciences, University of California, San Diego, 9500 Gilman Dr, La Jolla, CA 92093 0322, USA
    J Exp Med 200:1205-11. 2004
  3. pmc p53 Induces skin aging by depleting Blimp1+ sebaceous gland cells
    J Kim
    Division of Biological Sciences, University of California, 9500 Gilman Drive, La Jolla, CA, USA
    Cell Death Dis 5:e1141. 2014
  4. ncbi request reprint A new role for p53 in maintaining genetic stability in embryonic stem cells
    Yang Xu
    Cell Cycle 4:363-4. 2005
  5. doi request reprint Induction of genetic instability by gain-of-function p53 cancer mutants
    Y Xu
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, La Jolla, CA 92093 0322, USA
    Oncogene 27:3501-7. 2008
  6. ncbi request reprint Regulation of p53 responses by post-translational modifications
    Yang Xu
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, USA
    Cell Death Differ 10:400-3. 2003
  7. ncbi request reprint DNA damage: a trigger of innate immunity but a requirement for adaptive immune homeostasis
    Yang Xu
    Section of Molecular Biology, Division of Biological Sciences, University of California San Diego, 9500 Gilman Drive, La Jolla, California 92093 0322, USA
    Nat Rev Immunol 6:261-70. 2006
  8. pmc Involvement of p53 and p21 in cellular defects and tumorigenesis in Atm-/- mice
    Y Xu
    Department of Biology, University of California, San Diego, La Jolla, California 92093 0322, USA
    Mol Cell Biol 18:4385-90. 1998
  9. ncbi request reprint p53 gain-of-function cancer mutants induce genetic instability by inactivating ATM
    Hoseok Song
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Nat Cell Biol 9:573-80. 2007
  10. pmc Functional interaction of H2AX, NBS1, and p53 in ATM-dependent DNA damage responses and tumor suppression
    Jian Kang
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Dr, La Jolla, CA 92093 0322, USA
    Mol Cell Biol 25:661-70. 2005

Collaborators

Detail Information

Publications86

  1. ncbi request reprint Stem Cell Therapy and Immunological Rejection in animal models
    Xiaowei Jin
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Curr Mol Pharmacol . 2015
    ..This review discusses recent progress in our understanding of the immunogenicity of pluripotent stem cells and the development of new strategies to resolve this challenge...
  2. pmc Important roles for E protein binding sites within the immunoglobulin kappa chain intronic enhancer in activating Vkappa Jkappa rearrangement
    Matthew A Inlay
    Div of Biological Sciences, University of California, San Diego, 9500 Gilman Dr, La Jolla, CA 92093 0322, USA
    J Exp Med 200:1205-11. 2004
    ..Because E2A family proteins are the only known factors that bind to these E boxes, these findings provide unambiguous evidence that E2A is a key regulator of kappa rearrangement...
  3. pmc p53 Induces skin aging by depleting Blimp1+ sebaceous gland cells
    J Kim
    Division of Biological Sciences, University of California, 9500 Gilman Drive, La Jolla, CA, USA
    Cell Death Dis 5:e1141. 2014
    ..Therefore, our results indicate that p53-mediated aging of the skin involves not only thinning through the loss of subdermal fat, but also xerosis or drying of the skin through declining sebaceous gland activity. ..
  4. ncbi request reprint A new role for p53 in maintaining genetic stability in embryonic stem cells
    Yang Xu
    Cell Cycle 4:363-4. 2005
    ....
  5. doi request reprint Induction of genetic instability by gain-of-function p53 cancer mutants
    Y Xu
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, La Jolla, CA 92093 0322, USA
    Oncogene 27:3501-7. 2008
    ....
  6. ncbi request reprint Regulation of p53 responses by post-translational modifications
    Yang Xu
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, USA
    Cell Death Differ 10:400-3. 2003
  7. ncbi request reprint DNA damage: a trigger of innate immunity but a requirement for adaptive immune homeostasis
    Yang Xu
    Section of Molecular Biology, Division of Biological Sciences, University of California San Diego, 9500 Gilman Drive, La Jolla, California 92093 0322, USA
    Nat Rev Immunol 6:261-70. 2006
    ....
  8. pmc Involvement of p53 and p21 in cellular defects and tumorigenesis in Atm-/- mice
    Y Xu
    Department of Biology, University of California, San Diego, La Jolla, California 92093 0322, USA
    Mol Cell Biol 18:4385-90. 1998
    ..However, the p21 mRNA level in Atm-/- MEFs is lower than that in Atm+/+ MEFs, suggesting that the higher level of constitutive p21 protein in Atm-/- MEFs is likely due to increased stability of the p21 protein...
  9. ncbi request reprint p53 gain-of-function cancer mutants induce genetic instability by inactivating ATM
    Hoseok Song
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Nat Cell Biol 9:573-80. 2007
    ..Therefore, p53 gain-of-function mutants promote tumorigenesis by a novel mechanism involving active disruption of critical DNA damage-response pathways...
  10. pmc Functional interaction of H2AX, NBS1, and p53 in ATM-dependent DNA damage responses and tumor suppression
    Jian Kang
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Dr, La Jolla, CA 92093 0322, USA
    Mol Cell Biol 25:661-70. 2005
    ..Therefore, NBS1, H2AX, and p53 play synergistic roles in ATM-dependent DNA damage responses and tumor suppression...
  11. ncbi request reprint Ser46 phosphorylation regulates p53-dependent apoptosis and replicative senescence
    Lijin Feng
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, La Jolla, California 92093 0322, USA
    Cell Cycle 5:2812-9. 2006
    ..In addition, p53hki(S46A) MEFs more readily escapes from Ras-induced senescence. Therefore, Ser46 phosphorylation activates p53-dependent apoptosis induced by DNA damage and cellular senescence induced by oncogenic stress...
  12. ncbi request reprint p53 induces differentiation of mouse embryonic stem cells by suppressing Nanog expression
    Tongxiang Lin
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Nat Cell Biol 7:165-71. 2005
    ..These findings indicate an alternative mechanism for p53 to maintain genetic stability in ESCs, by inducing the differentiation of ESCs into other cell types that undergo efficient p53-dependent cell-cycle arrest and apoptosis...
  13. pmc Acetylation of mouse p53 at lysine 317 negatively regulates p53 apoptotic activities after DNA damage
    Connie Chao
    Section of Molecular Biology, Division of Biological Sciences, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Mol Cell Biol 26:6859-69. 2006
    ..These findings demonstrate that acetylation at lysine 317 negatively regulates p53 apoptotic activities after DNA damage...
  14. ncbi request reprint Roles of the Ig kappa light chain intronic and 3' enhancers in Igk somatic hypermutation
    Matthew A Inlay
    Division of Biological Sciences, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
    J Immunol 177:1146-51. 2006
    ..In addition, a reduction of kappa mRNA levels is also detected in activated 3'E(kappa)(-/-) B cells. These findings suggest that iE(kappa) and 3'E(kappa) play distinct roles in regulating Igk transcription and SHM...
  15. pmc Functional analysis of the roles of posttranslational modifications at the p53 C terminus in regulating p53 stability and activity
    Lijin Feng
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Mol Cell Biol 25:5389-95. 2005
    ....
  16. ncbi request reprint Cell type- and promoter-specific roles of Ser18 phosphorylation in regulating p53 responses
    Connie Chao
    Division of Biological Sciences, University of California, San Diego, La Jolla, California 92093 0322, USA
    J Biol Chem 278:41028-33. 2003
    ..This indicates that neither phosphorylation of p53 on Ser18 by ATM nor a full transcriptional response is essential to prevent spontaneous tumor formation in mice...
  17. pmc Ser18 and 23 phosphorylation is required for p53-dependent apoptosis and tumor suppression
    Connie Chao
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, La Jolla, CA 92093 0322, USA
    EMBO J 25:2615-22. 2006
    ..Therefore, Ser18 and Ser23 phosphorylation is important for p53-dependent suppression of tumorigenesis in certain physiological context...
  18. doi request reprint Modeling disease in human ESCs using an efficient BAC-based homologous recombination system
    Hoseok Song
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Cell Stem Cell 6:80-9. 2010
    ..Our findings suggest that it will be feasible to develop genetically modified hESCs as relevant human disease models...
  19. pmc Phosphorylation stabilizes Nanog by promoting its interaction with Pin1
    Matteo Moretto-Zita
    Section of Molecular Biology and Cell and Developmental Biology, Division of Biological Sciences, University of California, La Jolla, CA 92093 0322, USA
    Proc Natl Acad Sci U S A 107:13312-7. 2010
    ..Therefore, in addition to the stringent transcriptional regulation of Nanog, the expression level of Nanog is also modulated by posttranslational mechanisms...
  20. ncbi request reprint Dual roles of ATM in the cellular response to radiation and in cell growth control
    Y Xu
    Department of Biology, Massachusetts Institute of Technology, Cambridge 02139, USA
    Genes Dev 10:2401-10. 1996
    ..ATM+/- fibroblasts and thymocytes showed intermediately defective responses to irradiation but no growth defect, suggesting that the increased cancer risk of AT heterozygotes could be attributable to poor checkpoint function...
  21. doi request reprint Humanized Mice Reveal Differential Immunogenicity of Cells Derived from Autologous Induced Pluripotent Stem Cells
    Tongbiao Zhao
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 920932, USA State Key Laboratory of Reproductive Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
    Cell Stem Cell 17:353-9. 2015
    ..These findings support the feasibility of developing hiPSC-derived RPEs for treating macular degeneration. ..
  22. pmc Proteome-wide detection of Abl1 SH3-binding peptides by integrating computational prediction and peptide microarray
    Zheng Xu
    Division of Biological Sciences, University of California, San Diego, California 92093 0359, USA
    Mol Cell Proteomics 11:O111.010389. 2012
    ..This study illustrates a powerful approach for integrating computational and experimental methods to detect protein interactions mediated by domain-peptide recognition...
  23. ncbi request reprint The activity of p53 is differentially regulated by Brm- and Brg1-containing SWI/SNF chromatin remodeling complexes
    Yang Xu
    Center for Comparative Oncology, University of California, Davis, CA 95616, USA
    J Biol Chem 282:37429-35. 2007
    ..Thus, we hypothesize that the potential tumor suppressor function for Brg1 is mediated in part through the p53 pathway...
  24. pmc Puma is required for p53-induced depletion of adult stem cells
    Dongping Liu
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Nat Cell Biol 12:993-8. 2010
    ..These findings suggest a key role of p53-dependent apoptosis in depleting adult stem cells after the accumulation of DNA damage, which leads to a decrease in tissue regeneration...
  25. pmc Antibody-catalyzed anaerobic destruction of methamphetamine
    Yang Xu
    Departments of Chemistry and Immunology, Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Proc Natl Acad Sci U S A 104:3681-6. 2007
    ....
  26. pmc A common gain of function of p53 cancer mutants in inducing genetic instability
    D P Liu
    Section of Molecular Biology, Division of Biological Sciences, University of California, La Jolla, CA, USA
    Oncogene 29:949-56. 2010
    ....
  27. pmc Critical roles of the immunoglobulin intronic enhancers in maintaining the sequential rearrangement of IgH and Igk loci
    Matthew A Inlay
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, La Jolla, CA 92093, USA
    J Exp Med 203:1721-32. 2006
    ..Therefore, Emu and MiE(kappa) play developmental stage-specific roles in maintaining the sequential rearrangement of IgH and Igk loci by promoting the accessibility of V, D, and J loci to the V(D)J recombinase...
  28. pmc Mutation of mouse p53 Ser23 and the response to DNA damage
    Zhiqun Wu
    Section of Molecular Biology, Division of Biology, University of California, San Diego, La Jolla, California 92093 0322, USA
    Mol Cell Biol 22:2441-9. 2002
    ..Therefore, phosphorylation of murine p53 at Ser23 is not required for p53 responses to DNA damage induced by UV and ionizing radiation treatment...
  29. pmc A scalable approach to prevent teratoma formation of human embryonic stem cells
    Zhili Rong
    Division of Biological Sciences, University of California at San Diego, La Jolla, California 92093 0322, USA
    J Biol Chem 287:32338-45. 2012
    ..S. Food and Drug Administration-approved drugs, our strategy could be effectively applied to the clinic development of hESC-based human cell therapy...
  30. pmc Context-dependent enhancement of induced pluripotent stem cell reprogramming by silencing Puma
    Blue B Lake
    Division of Biological Sciences, University of California, 9500 Gilman Drive, La Jolla, California, USA
    Stem Cells 30:888-97. 2012
    ..Therefore, our findings provide a potentially safe approach to enhance iPSC derivation by transiently silencing Puma and p21 without compromising genomic integrity...
  31. ncbi request reprint Ser18 and Ser23 phosphorylation plays synergistic roles in activating p53-dependent neuronal apoptosis
    Jeremy Song
    Division of Biological Sciences, University of California at San Diego, La Jolla, California 92093 0322, USA
    Cell Cycle 6:1412-4. 2007
    ..Therefore, Ser18 and Ser23 phosphorylation plays synergistic and critical roles in activating p53-dependent neuronal apoptosis...
  32. pmc Targeted disruption of NBS1 reveals its roles in mouse development and DNA repair
    Jian Kang
    Section of Molecular Biology, Division of Biology, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    EMBO J 21:1447-55. 2002
    ..Thus, NBS1 and ATM have overlapping and distinct functions in animal development and DNA repair...
  33. ncbi request reprint Radiation-induced apoptosis in developing mouse retina exhibits dose-dependent requirement for ATM phosphorylation of p53
    H L Borges
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Cell Death Differ 11:494-502. 2004
    ..These results suggest that ATM activates the apoptotic function of p53 in vivo through alternative pathways depending on IR dose...
  34. pmc Phosphorylation of murine p53 at ser-18 regulates the p53 responses to DNA damage
    C Chao
    Division of Biology and Cancer Center, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Proc Natl Acad Sci U S A 97:11936-41. 2000
    ..Additionally, efficient acetylation of the C terminus of p53 in response to DNA damage did not require phosphorylation of murine p53 at Ser-18...
  35. ncbi request reprint Targeted disruption of ATM leads to growth retardation, chromosomal fragmentation during meiosis, immune defects, and thymic lymphoma
    Y Xu
    Department of Biology, Massachusetts Institute of Technology, Cambridge 02139, USA
    Genes Dev 10:2411-22. 1996
    ..These findings indicate that the ATM gene product plays an essential role in a diverse group of cellular processes, including meiosis, the normal growth of somatic tissues, immune development, and tumor suppression...
  36. doi request reprint p53 and stem cells: new developments and new concerns
    Tongbiao Zhao
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Trends Cell Biol 20:170-5. 2010
    ..Elucidation of the roles of p53 as a barrier to pluripotency and cellular dedifferentiation might also reveal the mechanisms by which p53 coordinates tumor suppression and aging...
  37. ncbi request reprint Epigenetic regulation of antigen receptor rearrangement
    Matthew Inlay
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Clin Immunol 109:29-36. 2003
    ..In this paper, we critically examine the relationship between demethylation and V(D)J recombination as well as the mechanism to regulate DNA demethylation within the antigen receptor loci...
  38. pmc Functional analysis of the acetylation of human p53 in DNA damage responses
    Sun Ku Chung
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA, 92093, USA
    Protein Cell 5:544-51. 2014
    ....
  39. pmc Oct4 maintains the pluripotency of human embryonic stem cells by inactivating p53 through Sirt1-mediated deacetylation
    Zhen Ning Zhang
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, La Jolla, California, USA
    Stem Cells 32:157-65. 2014
    ....
  40. ncbi request reprint Involvement of receptor-interacting protein 2 in innate and adaptive immune responses
    Arnold i Chin
    Molecular Biology Institute, University of California, Los Angeles, California 90095, USA
    Nature 416:190-4. 2002
    ..Our data reflect requirements for Rip2 in multiple pathways regulating immune and inflammatory responses...
  41. ncbi request reprint Gain of function of p53 cancer mutants in disrupting critical DNA damage response pathways
    Hoseok Song
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, La Jolla, California 92093, USA
    Cell Cycle 6:1570-3. 2007
    ....
  42. ncbi request reprint Development of a FRET assay for monitoring of HIV gp41 core disruption
    Yang Xu
    Department of Chemistry and Immunology and The Skaggs Institute for Chemical Biology and Worm Institute for Research and Medicine WIRM, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    J Org Chem 72:6700-7. 2007
    ..Herein, we report the design, synthesis, and development of a N- and C- terminal peptide FRET pair for screening of gp41 six-helix bundle disruption...
  43. ncbi request reprint Squaric monoamide monoester as a new class of reactive immunization hapten for catalytic antibodies
    Yang Xu
    The Skaggs Institute for Chemical Biology, Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Bioorg Med Chem Lett 15:4304-7. 2005
    ..Because antibodies 2D4 and 3C8 result in covalent attachment and thus inactivation of paraoxon, they could be useful probes for investigating paraoxon intoxication...
  44. ncbi request reprint Disease research and drug development models based on genetically altered human embryonic stem cells
    Hoseok Song
    Section of Molecular Biology, Division of Biological Sciences, University of California at San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
    Discov Med 9:500-3. 2010
    ..Here we summarize recent progresses in developing hESCs into human disease models...
  45. pmc Characterization of domain-peptide interaction interface: a generic structure-based model to decipher the binding specificity of SH3 domains
    Tingjun Hou
    Department of Chemistry and Biochemistry, University of California at San Diego, La Jolla, California 92093, USA
    Mol Cell Proteomics 8:639-49. 2009
    ..The success of our framework on SH3 domains suggests that it is possible to establish a theoretical model to decipher the protein recognition code of any modular domain...
  46. ncbi request reprint Rescue of defective T cell development and function in Atm-/- mice by a functional TCR alpha beta transgene
    C Chao
    Department of Biology, University of California, San Diego, La Jolla 92093, USA
    J Immunol 164:345-9. 2000
    ..Therefore, the defective T-dependent immune responses in Atm-/- mice must be secondary to greatly reduced T cell numbers in these mutant mice...
  47. doi request reprint Brief Report: Immune Microenvironment Determines the Immunogenicity of Induced Pluripotent Stem Cell Derivatives
    Dilyana Todorova
    Division of Biological Sciences, University of California, San Diego, La Jolla, California, USA
    Stem Cells 34:510-5. 2016
    ....
  48. ncbi request reprint Essential roles of the kappa light chain intronic enhancer and 3' enhancer in kappa rearrangement and demethylation
    Matthew Inlay
    Section of Molecular Biology, Division of Biology, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Nat Immunol 3:463-8. 2002
    ..Our findings also indicate that the two kappa enhancers play overlapping and distinct roles in the demethylation of kappa in B cells...
  49. pmc Using flow cytometry to compare the dynamics of photoreceptor outer segment phagocytosis in iPS-derived RPE cells
    Peter D Westenskow
    Department of Cell Biology, The Scripps Research Institute, La Jolla, California, USA
    Invest Ophthalmol Vis Sci 53:6282-90. 2012
    ..One important and required function is that the iPS-RPE phagocytose photoreceptor outer segments (POS)...
  50. pmc Genome integrity: linking pluripotency and tumorgenicity
    Wenbin Deng
    Department of Cell Biology and Human Anatomy, Institute of Pediatric Regenerative Medicine, School of Medicine, University of California, Davis, 2425 Stockton Boulevard, Sacramento, CA 95817, USA
    Trends Genet 25:425-7. 2009
    ..Therefore, it is also crucial to determine the tumorgenicity of the cells derived from iPSCs for any future therapeutic use...
  51. doi request reprint Immunogenicity of induced pluripotent stem cells
    Tongbiao Zhao
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093 0322, USA
    Nature 474:212-5. 2011
    ..Therefore, the immunogenicity of therapeutically valuable cells derived from patient-specific iPSCs should be evaluated before any clinic application of these autologous cells into the patients...
  52. ncbi request reprint Antibody catalyzed hydrolysis of a quorum sensing signal found in Gram-negative bacteria
    Sandra De Lamo Marin
    Department of Chemistry, The Skaggs Institute for Chemical Biology, and Worm Institute for Research and Medicine WIRM, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Bioorg Med Chem Lett 17:1549-52. 2007
    ..These studies suggest that antibody catalysis could provide a new avenue for blocking quorum sensing in bacteria...
  53. ncbi request reprint Discovery of acetylcholinesterase peripheral anionic site ligands through computational refinement of a directed library
    Tobin J Dickerson
    Department of Chemistry, Molecular Biology and The Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    Biochemistry 44:14845-53. 2005
    ..These compounds are among the most potent inhibitors of amyloid beta-peptide aggregation and are equivalent only to propidium, a well-characterized AChE peripheral anionic site binder and aggregation inhibitor...
  54. pmc Inhibitors of Src and focal adhesion kinase promote endocrine specification: impact on the derivation of β-cells from human pluripotent stem cells
    Ivka Afrikanova
    Department of Pediatrics, University of California San Diego, San Diego, California 92121, USA
    J Biol Chem 286:36042-52. 2011
    ..This study has important implications for the derivation of β-cells for the cell-based therapy of diabetes and sheds new light on the signaling events that regulate early endocrine specification...
  55. pmc Stemness factor Sall4 is required for DNA damage response in embryonic stem cells
    Jianhua Xiong
    Section of Molecular Biology and Section of Cell and Developmental Biology, Division of Biological Sciences, University of California, San Diego, La Jolla, CA 92093
    J Cell Biol 208:513-20. 2015
    ..Our findings provide novel mechanisms to coordinate stemness of ESCs with DNA damage response, ensuring genomic stability during the expansion of ESCs. ..
  56. pmc An effective approach to prevent immune rejection of human ESC-derived allografts
    Zhili Rong
    Section of Molecular Biology, Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Cell Stem Cell 14:121-30. 2014
    ..These findings are instrumental for developing a strategy to protect hESC-derived cells from allogenic immune responses without requiring systemic immune suppression...
  57. pmc The genomic stability of induced pluripotent stem cells
    Zhao Chen
    Division of Biological Sciences, University of California, San Diego, La Jolla, CA 92093 0322, USA
    Protein Cell 3:271-7. 2012
    ..Therefore, the clinic application of iPSCs will require the optimization of the reprogramming technology to minimize the genetic and epigenetic abnormalities associated with induced pluripotency...
  58. pmc p53, oxidative stress, and aging
    Dongping Liu
    Section of Molecular Biology, Division of Biological Sciences, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
    Antioxid Redox Signal 15:1669-78. 2011
    ..Therefore, a balance of p53 antioxidant and prooxidant activities in response to oxidative stresses could be important for longevity by suppressing the accumulation of oxidative stresses and DNA damage...
  59. pmc Evaluation of "credit card" libraries for inhibition of HIV-1 gp41 fusogenic core formation
    Yang Xu
    Department of Chemistry and Immunology and The Skaggs Institute for Chemical Biology and Worm Institute for Research and Medicine WIRM, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA
    J Comb Chem 8:531-9. 2006
    ..From the high-throughput screening assays we utilized, a selective index (SI) value of 4.2 was uncovered for compound 2261, which bodes well for future structure activity investigations and the design of more potent gp41 inhibitors...
  60. pmc Mouse SCNT ESCs have lower somatic mutation load than syngeneic iPSCs
    Zhe Li
    Division of Biological Sciences, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093 0322, USA
    Stem Cell Reports 2:399-405. 2014
    ..In contrast, every iPSC line carries unique mutations. Our study highlights the need for improving reprogramming methods in more physiologically relevant conditions. ..
  61. ncbi request reprint Catalytic antibodies: hapten design strategies and screening methods
    Yang Xu
    The Scripps Research Institute, Department of Chemistry and The Skaggs Institute of Chemical Biology, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Bioorg Med Chem 12:5247-68. 2004
    ..We also comment on recent developments in the screening process that allow for a more efficient identification of antibody catalysts...
  62. pmc Transcription activity is required for p53-dependent tumor suppression
    O Gaidarenko
    Division of Biological Sciences, University of California, San Diego, La Jolla, CA, USA
    Oncogene 28:4397-401. 2009
    ....
  63. ncbi request reprint UV-induced expression of GADD45 is mediated by an oxidant sensitive pathway in cultured human keratinocytes and in human skin in vivo
    Y Wan
    Department of Biology, Providence College, Providence, RI 02918, USA
    Int J Mol Med 6:683-8. 2000
    ..Collectively, our data suggest that UV-induced GADD45alpha expression occur via an EGF receptor-mediated oxidative pathway sensitive to antioxidant regulation...
  64. pmc Modeling of a human circadian mutation yields insights into clock regulation by PER2
    Y Xu
    Department of Neurology, University of California, San Francisco, San Francisco, CA 94158, USA
    Cell 128:59-70. 2007
    ..Altering CKIdelta dosage modulates the S662 phenotype demonstrating that CKIdelta can regulate period through PER2 in vivo. Modeling a naturally occurring human variant in mice has yielded novel insights into PER2 regulation...
  65. ncbi request reprint Evidence for the direct binding of phosphorylated p53 to sites of DNA breaks in vivo
    Shahnaz T Al Rashid
    Ontario Cancer Institute Princess Margaret Hospital, University Health Network, Toronto, Canada
    Cancer Res 65:10810-21. 2005
    ....
  66. pmc DNA damage-induced apoptosis requires the DNA-dependent protein kinase, and is mediated by the latent population of p53
    Richard A Woo
    Cancer Biology Research Group and Department of Microbiology and Infectious Diseases, University of Calgary, Calgary, Alberta, Canada T2N 4N1
    EMBO J 21:3000-8. 2002
    ..Finally, E1A-expressing MEFs from a p53 "knock-in" mouse where Ser18 was mutated to an alanine had an attenuated apoptotic response, indicating that phosphorylation of this site by DNA-PK is a contributing factor for apoptosis...
  67. ncbi request reprint Glyoxalase II, a detoxifying enzyme of glycolysis byproduct methylglyoxal and a target of p63 and p73, is a pro-survival factor of the p53 family
    Yang Xu
    Department of Cell Biology, University of Alabama, Birmingham, Alabama 35294 0005, USA
    J Biol Chem 281:26702-13. 2006
    ....
  68. ncbi request reprint AMP-activated protein kinase induces a p53-dependent metabolic checkpoint
    Russell G Jones
    Abramson Family Cancer Research Institute, Department of Cancer Biology, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
    Mol Cell 18:283-93. 2005
    ..However, persistent activation of AMPK leads to accelerated p53-dependent cellular senescence. Thus, AMPK is a cell-intrinsic regulator of the cell cycle that coordinates cellular proliferation with carbon source availability...
  69. ncbi request reprint Role of bone marrow-derived progenitor cells in cuff-induced vascular injury in mice
    Yang Xu
    Department of Geriatric Medicine, Kyoto University Graduate School of Medicine, Kyoto, Japan
    Arterioscler Thromb Vasc Biol 24:477-82. 2004
    ..However, the origin of SMCs and other cells in the development of vascular remodeling is not yet fully understood...
  70. pmc Quantitative proteomics analysis of the effects of ionizing radiation in wild type and p53 K317R knock-in mouse thymocytes
    Lisa M Miller Jenkins
    Laboratory of Cell Biology, NCI, National Institutes of Health, Bethesda, Maryland 20892, USA
    Mol Cell Proteomics 7:716-27. 2008
    ..These results suggest that acetylation of Lys-317 modulates the functions of p53 and influences the cross-talk between the DNA damage response and other signaling pathways...
  71. ncbi request reprint Phosphorylation site interdependence of human p53 post-translational modifications in response to stress
    Shin ichi Saito
    Laboratory of Cell Biology, NCI, National Institutes of Health, Bethesda, Maryland 20892, USA
    J Biol Chem 278:37536-44. 2003
    ....
  72. ncbi request reprint A novel peptide that selectively binds highly metastatic hepatocellular carcinoma cell surface is related to invasion and metastasis
    Wei Dong Jia
    Liver Cancer Institute, Zhongshan Hospital, Fudan University, Shanghai 200032, People s Republic of China
    Cancer Lett 247:234-42. 2007
    ..Identification of the receptor for the AWYPLPP peptide may provide new insights into the molecular mechanism of HCC metastasis...
  73. ncbi request reprint Molecular characterization of woodchuck interleukin 15 (wIL-15) and detection of its expression in liver samples of woodchucks infected with woodchuck hepatitis virus (WHV)
    Baoju Wang
    Institut fur Virologie, Universitatsklinikum Essen, Hufeland Str 55, 45122 Essen, Germany
    Cytokine 32:296-303. 2005
    ....
  74. pmc A Drosophila model of Barth syndrome
    Yang Xu
    Department of Anesthesiology, New York University School of Medicine, New York, NY 10016, USA
    Proc Natl Acad Sci U S A 103:11584-8. 2006
    ..We conclude that a lack of full-length tafazzin is responsible for the cardiolipin deficiency, which is integral to the disease mechanism, leading to mitochondrial myopathy...
  75. ncbi request reprint Overexpression of platelet-derived growth factor receptor alpha in endothelial cells of hepatocellular carcinoma associated with high metastatic potential
    Ti Zhang
    Liver Cancer Institute and Zhong Shan Hospital of Fudan University, Shanghai, People s Republic of China
    Clin Cancer Res 11:8557-63. 2005
    ..The aim of this study was to identify the differentially expressed genes in tumor endothelial cells from highly metastatic hepatocellular carcinoma...
  76. ncbi request reprint Characterization of lymphoblast mitochondria from patients with Barth syndrome
    Yang Xu
    Department of Anesthesiology, New York University School of Medicine, New York, NY 10016, USA
    Lab Invest 85:823-30. 2005
    ..The data suggest that phospholipid abnormalities of BTHS mitochondria led to partial uncoupling of oxidative phosphorylation and that lymphoblasts compensated for this deficiency by expanding the mitochondrial compartment...
  77. ncbi request reprint B cells expressing a natural polyreactive autoantibody have a distinct phenotype and are overrepresented in immunoglobulin heavy chain transgenic mice
    Qi Tian
    Department of Pathology L113, Oregon Health and Science University, Portland, OR 97239, USA
    J Immunol 177:2412-22. 2006
    ..The findings indicate that the ppc1-5/lambda1 natural autoantibodies originate from a distinct B cell subset that may be positively selected by virtue of its poly/autoreactivity...
  78. ncbi request reprint [Suppression of c-myc expression by interference RNA in HepG2 hepatocellular carcinoma cells]
    Yang Xu
    Department of Molecular Immunology, Cancer Institute Hospital, Chinese Academy of Medical Science, Peking Union Medical College, Beijing 100021, China
    Zhonghua Zhong Liu Za Zhi 26:458-60. 2004
    ..To study the inhibitory effect of RNA interference (RNAi) on c-myc expression in hepatocellular carcinoma cell line, HepG2...
  79. pmc Comparison of lymphoblast mitochondria from normal subjects and patients with Barth syndrome using electron microscopic tomography
    Devrim Acehan
    Skirball Institute and Department of Cell Biology, New York University School of Medicine, New York, NY 10016, USA
    Lab Invest 87:40-8. 2007
    ..The data suggest that mitochondrial abnormalities of BTHS involve adhesions of inner mitochondrial membranes with subsequent collapse of the intracristae space...
  80. ncbi request reprint Protection of atherogenesis in thromboxane A2 receptor-deficient mice is not associated with thromboxane A2 receptor in bone marrow-derived cells
    Xin Zhuge
    Department of Clinical Innovative Medicine, Kyoto University Graduate School of Medicine, 54 Kawahara cho, Shogoin, Sakyo ku, Kyoto 606 8507, Japan
    Biochem Biophys Res Commun 351:865-71. 2006
    ..These results indicate that the protection of atherogenesis in TP(-/-) mice is not associated with TP in BM-derived cells...
  81. ncbi request reprint Establishment of green fluorescent protein-expressing hepatocellular carcinoma cell lines with different metastatic potential: relevant models for in vivo monitoring of metastasis and angiogenesis
    Yang Xu
    Liver Cancer Institute and Zhong Shan Hospital, Fudan University, 136 Yi Xue Yuan Road, 200032 Shanghai, China
    J Cancer Res Clin Oncol 130:375-82. 2004
    ..To establish stable green fluorescent protein (GFP)-expressing metastatic human hepatocellular carcinoma (HCC) cell lines with different metastatic potential for long-term in vivo studies of metastasis and angiogenesis...
  82. ncbi request reprint Hypercholesterolemia contributes to the development of atherosclerosis and vascular remodeling by recruiting bone marrow-derived cells in cuff-induced vascular injury
    Yang Xu
    Department of Clinical Innovative Medicine, Kyoto University Graduate School of Medicine, 54 Kawahara cho, Shogoin, Sakyo ku, Kyoto 606 8507, Japan
    Biochem Biophys Res Commun 363:782-7. 2007
    ..Adventitial small vessels were positive both for CD31 and GFP. Our data indicate that BM-derived cells can contribute to the development of atherosclerosis in the presence of hypercholesterolemia...
  83. ncbi request reprint Inhibition of hepatitis B virus replication by MyD88 is mediated by nuclear factor-kappaB activation
    Shanshan Lin
    Laboratory of Molecular Virology, Shanghai Medical College, Fudan University, Shanghai 200032, China
    Biochim Biophys Acta 1772:1150-7. 2007
    ..These results support a role for NF-kappaB activation in the inhibition of HBV replication and suggest a novel mechanism for the inhibition of HBV replication by MyD88 protein...
  84. doi request reprint CXCL16 functions as a novel chemotactic factor for prostate cancer cells in vitro
    Yi Lu
    Department of Medicine, Pittsburgh VA Healthcare System, Research and Development, University of Pittsburgh, Pittsburgh, PA 15240, USA
    Mol Cancer Res 6:546-54. 2008
    ..CXCL16 was found to promote prostate cancer cell migration and invasion in vitro. Therefore, we concluded that CXCL16 functions, through CXCR6, as a novel chemotactic factor for prostate cancer cells...
  85. ncbi request reprint Vascular remodeling and mobilization of bone marrow-derived cells in cuff-induced vascular injury in LDL receptor knockout mice
    Yang Xu
    Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100094, China
    Chin Med J (Engl) 121:220-6. 2008
    ..But the manner of lesion formation in neointima and cell recruitment in vascular remodeling lesion in the present of hypercholesterolemia is not yet fully understood...
  86. ncbi request reprint Remodeling of cardiolipin by phospholipid transacylation
    Yang Xu
    Department of Anesthesiology, New York University School of Medicine, New York, New York 10016, USA
    J Biol Chem 278:51380-5. 2003
    ..The data suggest that CL is remodeled by acyl specific phospholipid transacylation and that tafazzin is an acyltransferase involved in this mechanism...

Research Grants3

  1. FUNCTIONAL STUDIES OF IMMUNOGLOBULIN KAPPA ENHANCERS
    Yang Xu; Fiscal Year: 2004
    ..We will again employ genetic approaches to further explore the functions of MiEkappa in somatic hypermutations of Igkappa in a physiological context. ..
  2. Mechanisms of pathogenesis in ataxia-telanglectasia
    Yang Xu; Fiscal Year: 2006
    ..In addition, I propose to investigate the functional interactions between NBS1 and H2AX, the two mediators of ATM functions. ..
  3. Regulation of Nanog in DNA damage response, development and tumorigenesis
    Yang Xu; Fiscal Year: 2010
    ..In addition, these studies will shed light on mechanism that maintains genetic stability in human ESCs, which have a great potential for future human cell/tissue replacement therapy. ..