Arnold J Levine

Summary

Affiliation: Institute for Advanced Study
Country: USA

Publications

  1. ncbi request reprint The P53 pathway: what questions remain to be explored?
    A J Levine
    Institute for Advanced Study and The Cancer Institute of New Jersey, Princeton, NJ 08540, USA
    Cell Death Differ 13:1027-36. 2006
  2. ncbi request reprint P53 is a tumor suppressor gene
    Arnold J Levine
    Institute for Advanced Study Einstein Drive, Princeton, New Jersey 08540, USA
    Cell 116:S67-9, 1 p following S69. 2004
  3. ncbi request reprint p53 regulates maternal reproduction through LIF
    Wenwei Hu
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, New Jersey 08903, USA
    Nature 450:721-4. 2007
  4. doi request reprint The control of the metabolic switch in cancers by oncogenes and tumor suppressor genes
    Arnold J Levine
    Institute for Advanced Study, Princeton, NJ 08540, USA
    Science 330:1340-4. 2010
  5. pmc Germline mutations and polymorphisms in the origins of cancers in women
    Kim M Hirshfield
    The Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, NJ 08901, USA
    J Oncol 2010:297671. 2010
  6. pmc The Interfaces Between Signal Transduction Pathways: IGF-1/mTor, p53 and the Parkinson Disease Pathway
    Arnold J Levine
    Cancer Institute of New Jersey, UMDNJ, New Brunswick, N J
    Oncotarget 3:1301-7. 2012
  7. pmc Identifying mRNA targets of microRNA dysregulated in cancer: with application to clear cell Renal Cell Carcinoma
    Huiqing Liu
    BioMaPS Institute, Rutgers University, Piscataway, NJ 08854, USA
    BMC Syst Biol 4:51. 2010
  8. pmc The p53HMM algorithm: using profile hidden markov models to detect p53-responsive genes
    Todd Riley
    The Institute for Advanced Study, Princeton, NJ, USA
    BMC Bioinformatics 10:111. 2009
  9. ncbi request reprint Coordination and communication between the p53 and IGF-1-AKT-TOR signal transduction pathways
    Arnold J Levine
    The Institute for Advanced Study, Princeton, New Jersey 08540, USA
    Genes Dev 20:267-75. 2006
  10. ncbi request reprint Reconstructing signal transduction pathways: challenges and opportunities
    Arnold J Levine
    School of Natural Sciences, Institute for Advanced Study, Einstein Drive, Princeton, NJ 08540 0631, USA
    Ann N Y Acad Sci 1115:32-50. 2007

Detail Information

Publications83

  1. ncbi request reprint The P53 pathway: what questions remain to be explored?
    A J Levine
    Institute for Advanced Study and The Cancer Institute of New Jersey, Princeton, NJ 08540, USA
    Cell Death Differ 13:1027-36. 2006
    ..The goal of this chapter is to elucidate some of those questions and suggest new directions for this area of research...
  2. ncbi request reprint P53 is a tumor suppressor gene
    Arnold J Levine
    Institute for Advanced Study Einstein Drive, Princeton, New Jersey 08540, USA
    Cell 116:S67-9, 1 p following S69. 2004
  3. ncbi request reprint p53 regulates maternal reproduction through LIF
    Wenwei Hu
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, New Jersey 08903, USA
    Nature 450:721-4. 2007
    ..These results demonstrate a function for p53 in maternal reproduction through the regulation of LIF. Evidence is accumulating that p53 may have a similar function in humans...
  4. doi request reprint The control of the metabolic switch in cancers by oncogenes and tumor suppressor genes
    Arnold J Levine
    Institute for Advanced Study, Princeton, NJ 08540, USA
    Science 330:1340-4. 2010
    ..Blocking these metabolic pathways or restoring these altered pathways could lead to a new approach in cancer treatments...
  5. pmc Germline mutations and polymorphisms in the origins of cancers in women
    Kim M Hirshfield
    The Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, NJ 08901, USA
    J Oncol 2010:297671. 2010
    ..Consideration of tumor heterogeneity is therefore important in the critical analysis of gene associations in cancer...
  6. pmc The Interfaces Between Signal Transduction Pathways: IGF-1/mTor, p53 and the Parkinson Disease Pathway
    Arnold J Levine
    Cancer Institute of New Jersey, UMDNJ, New Brunswick, N J
    Oncotarget 3:1301-7. 2012
    ..These interaction sites of the IGF/mTOR-p53- Parkinson genes pathways are reviewed with a focus upon a common role of responding to the generation of reactive oxygen species and mitophagy...
  7. pmc Identifying mRNA targets of microRNA dysregulated in cancer: with application to clear cell Renal Cell Carcinoma
    Huiqing Liu
    BioMaPS Institute, Rutgers University, Piscataway, NJ 08854, USA
    BMC Syst Biol 4:51. 2010
    ..Putative mRNA targets of microRNA identified from seed sequence matches are available in many databases. However, such matches have a high false positive rate and cannot identify tissue specificity of regulation...
  8. pmc The p53HMM algorithm: using profile hidden markov models to detect p53-responsive genes
    Todd Riley
    The Institute for Advanced Study, Princeton, NJ, USA
    BMC Bioinformatics 10:111. 2009
    ..This new criteria for classifying putative p53-binding sites increases predictive accuracy by reducing the false positive rate...
  9. ncbi request reprint Coordination and communication between the p53 and IGF-1-AKT-TOR signal transduction pathways
    Arnold J Levine
    The Institute for Advanced Study, Princeton, New Jersey 08540, USA
    Genes Dev 20:267-75. 2006
    ..In turn these pathways regulate cell growth, proliferation, and death. These networks are central to our understanding of a variety of physiological and pathological conditions, including cancer, diabetes, and longevity...
  10. ncbi request reprint Reconstructing signal transduction pathways: challenges and opportunities
    Arnold J Levine
    School of Natural Sciences, Institute for Advanced Study, Einstein Drive, Princeton, NJ 08540 0631, USA
    Ann N Y Acad Sci 1115:32-50. 2007
    ....
  11. doi request reprint The common mechanisms of transformation by the small DNA tumor viruses: The inactivation of tumor suppressor gene products: p53
    Arnold J Levine
    Institute for Advanced Study, Princeton, NJ 08540, USA
    Virology 384:285-93. 2009
    ....
  12. pmc The first 30 years of p53: growing ever more complex
    Arnold J Levine
    Arnold J Levine is at the Institute for Advanced Study, School of Natural Sciences, Einstein Drive, Princeton, New Jersey 08540, USA
    Nat Rev Cancer 9:749-58. 2009
    ..The fourth decade of research may see new p53-based drugs to treat cancer. What is next is anybody's guess...
  13. pmc Regulation of female reproduction by p53 and its family members
    Zhaohui Feng
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, New Jersey, USA
    FASEB J 25:2245-55. 2011
    ..Selected alleles of SNPs in p63 and p73 genes were enriched in IVF patients. These findings demonstrate that the p53 family members are involved in several steps to regulate female reproduction in mice and humans...
  14. ncbi request reprint The regulation of AMPK beta1, TSC2, and PTEN expression by p53: stress, cell and tissue specificity, and the role of these gene products in modulating the IGF-1-AKT-mTOR pathways
    Zhaohui Feng
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, New Jersey, USA
    Cancer Res 67:3043-53. 2007
    ..Upon glucose starvation of E1A-transformed mouse embryo fibroblasts, a p53-mediated apoptosis ensues. Thus, there is a great deal of communication between the p53 pathway and the IGF-1-AKT and mTOR pathways...
  15. pmc Polymorphic variants in TSC1 and TSC2 and their association with breast cancer phenotypes
    Madhura S Mehta
    Department of Medicine, Division of Medical Oncology, The Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey Robert Wood Johnson Medical School, New Brunswick, NJ 08901, USA
    Breast Cancer Res Treat 125:861-8. 2011
    ....
  16. pmc A genetic variant in a PP2A regulatory subunit encoded by the PPP2R2B gene associates with altered breast cancer risk and recurrence
    Alexei Vazquez
    Department of Radiation Oncology, University of Medicine and Dentistry of New Jersey Robert Wood Johnson Medical School, New Brunswick, NJ, USA
    Int J Cancer 128:2335-43. 2011
    ..Taken together these results indicate that the A variant of the rs319217 SNP is a marker of better prognosis in breast cancer...
  17. pmc Declining p53 function in the aging process: a possible mechanism for the increased tumor incidence in older populations
    Zhaohui Feng
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, NJ 08903, USA
    Proc Natl Acad Sci U S A 104:16633-8. 2007
    ....
  18. pmc Allele-specific p53 mutant reactivation
    Xin Yu
    The Cancer Institute of New Jersey, New Brunswick, NJ 08903, USA
    Cancer Cell 21:614-25. 2012
    ..This activity depends upon the zinc ion chelating properties of the compound as well as redox changes. These data identify NSC319726 as a p53(R175) mutant reactivator and as a lead compound for p53-targeted drug development...
  19. ncbi request reprint Robust diagnosis of non-Hodgkin lymphoma phenotypes validated on gene expression data from different laboratories
    Gyan Bhanot
    Center for Systems Biology, Institute for Advanced Study, Princeton, NJ 08540, USA
    Genome Inform 16:233-44. 2005
    ..In particular, we find that in 80% of DLBCL cases the mRNA level of at least one of the three genes p53, PLK1 and CDK2 is elevated, while in 80% of FL cases, the mRNA level of at most one of them is elevated...
  20. pmc A polymorphic variant in human MDM4 associates with accelerated age of onset of estrogen receptor negative breast cancer
    Diptee A Kulkarni
    Department of Medicine Division of Medical Oncology, The Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey Robert Wood Johnson Medical School, New Brunswick, NJ 08901, USA
    Carcinogenesis 30:1910-5. 2009
    ..2 years (P = 7 x 10(-5)) earlier than CC carriers in cohorts 1 and 2, respectively. No association was seen in ER-positive ductal cancers suggesting that the SNP in MDM4 only has a functional association in ER-negative breast cancer...
  21. ncbi request reprint MDM2 SNP309 accelerates tumor formation in a gender-specific and hormone-dependent manner
    Gareth L Bond
    The Institute for Advanced Study, Princeton, New Jersey 08540, USA
    Cancer Res 66:5104-10. 2006
    ....
  22. doi request reprint Chemosensitivity profiles identify polymorphisms in the p53 network genes 14-3-3tau and CD44 that affect sarcoma incidence and survival
    Alexei Vazquez
    The Institute for Advanced Study, Princeton, New Jersey, USA
    Cancer Res 70:172-80. 2010
    ..89 relative risk, P=0.011) and an earlier age of diagnosis (up to 10.7 years earlier, P=0.002). Our findings define genetic markers in 14-3-3tau and CD44 that might improve the treatment and prognosis of soft-tissue sarcomas...
  23. ncbi request reprint A single nucleotide polymorphism in the MDM2 gene disrupts the oscillation of p53 and MDM2 levels in cells
    Wenwei Hu
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, New Jersey, USA
    Cancer Res 67:2757-65. 2007
    ..e., the development of cancers at earlier age of onset in female)...
  24. pmc The coordinate regulation of the p53 and mTOR pathways in cells
    Zhaohui Feng
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey Robert Wood Johnson Medical School, New Brunswick, NJ 08903, USA
    Proc Natl Acad Sci U S A 102:8204-9. 2005
    ..Thus, p53 and mTOR signaling machineries can cross-talk and coordinately regulate cell growth, proliferation, and death...
  25. pmc Sequences from ancestral single-stranded DNA viruses in vertebrate genomes: the parvoviridae and circoviridae are more than 40 to 50 million years old
    Vladimir A Belyi
    Simons Center for Systems Biology, Institute for Advanced Study, Einstein Drive, Princeton, New Jersey 08540, USA
    J Virol 84:12458-62. 2010
    ..Our analyses indicate that the ages of both virus families may exceed 40 to 50 million years. Shared features of the replication strategies of these viruses may explain the high incidence of the integrations...
  26. pmc Negative regulation of tumor suppressor p53 by microRNA miR-504
    Wenwei Hu
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, NJ 08903, USA
    Mol Cell 38:689-99. 2010
    ..These results demonstrate the direct negative regulation of p53 by miR-504 as a mechanism for p53 regulation in cells, which highlights the importance of microRNAs in tumorigenesis...
  27. doi request reprint The p53 family: guardians of maternal reproduction
    Arnold J Levine
    Institute for Advanced Studies, Princeton, New Jersey 08540, USA
    Nat Rev Mol Cell Biol 12:259-65. 2011
    ..Elucidating the cell biological basis of how these factors regulate female fertility may lead to new approaches to the control of human maternal reproduction...
  28. ncbi request reprint The regulation of exosome secretion: a novel function of the p53 protein
    Xin Yu
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, New Jersey, USA
    Cancer Res 66:4795-801. 2006
    ..Thus, the p53 pathway regulates the production of exosomes into the medium and these vesicles can communicate with adjacent cells and even cells of the immune system...
  29. pmc Viral reassortment as an information exchange between viral segments
    Benjamin D Greenbaum
    The Simons Center for Systems Biology, Institute for Advanced Study, Princeton, NJ 08540, USA
    Proc Natl Acad Sci U S A 109:3341-6. 2012
    ..We find evolutionary patterns across classes of experiments and previously unobserved higher-level structures. Finally, we show how this approach can be combined with virulence potentials to assess pandemic threats...
  30. pmc Chronic restraint stress attenuates p53 function and promotes tumorigenesis
    Zhaohui Feng
    Department of Radiation Oncology and Department of Pediatrics, Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, NJ 08903, USA
    Proc Natl Acad Sci U S A 109:7013-8. 2012
    ....
  31. ncbi request reprint MDM2 is a central node in the p53 pathway: 12 years and counting
    Gareth L Bond
    School of Natural Sciences, Institute for Advanced Study, Princeton, NJ 08540, USA
    Curr Cancer Drug Targets 5:3-8. 2005
    ..The p53 gene is mutated in 50% of all human tumors, but in those tumors that retain wild type p53, inhibiting Mdm2 activity could activate p53 tumor suppression and therefore provide a therapeutic strategy for the treatment of cancer...
  32. ncbi request reprint The tumor suppressor p53: cancer and aging
    Zhaohui Feng
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, New Jersey, USA
    Cell Cycle 7:842-7. 2008
    ..We discuss here the coordination and communication between the p53 pathway and the IGF-1-mTOR pathways, and their possible impact on cancer and longevity...
  33. pmc Inactivation of p53 in breast cancers correlates with stem cell transcriptional signatures
    Hideaki Mizuno
    The Simons Center for Systems Biology, Institute for Advanced Study, Princeton, NJ 08540, USA
    Proc Natl Acad Sci U S A 107:22745-50. 2010
    ..These data are consistent with a model in which loss of p53 function enables acquisition of stem cell properties, which are positively selected during tumor progression...
  34. pmc An information-theoretic analysis of genetics, gender and age in cancer patients
    Gurinder Singh Atwal
    The Institute for Advanced Study, Princeton, New Jersey, United States of America
    PLoS ONE 3:e1951. 2008
    ..These results offer a molecular and genetic basis for the observed sexual dimorphism of cancer risk in p53 mutation carriers and a model is proposed that suggests a novel cancer prevention strategy for p53 mutation carriers...
  35. pmc Parkin, a p53 target gene, mediates the role of p53 in glucose metabolism and the Warburg effect
    Cen Zhang
    Department of Radiation Oncology and Department of Pediatrics, Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, NJ 08903, USA
    Proc Natl Acad Sci U S A 108:16259-64. 2011
    ....
  36. pmc Haplotype structure and selection of the MDM2 oncogene in humans
    Gurinder Singh Atwal
    Institute for Advanced Study, Simons Center for Systems Biology, Princeton, NJ 08540, USA
    Proc Natl Acad Sci U S A 104:4524-9. 2007
    ..An entropy-based selection test is presented that explicitly takes into account the correlations between different SNPs, and the analysis of MDM2 reveals a significant departure from the standard assumptions of selective neutrality...
  37. doi request reprint Differential levels of transcription of p53-regulated genes by the arginine/proline polymorphism: p53 with arginine at codon 72 favors apoptosis
    Byeong Seon Jeong
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, New Jersey, USA
    FASEB J 24:1347-53. 2010
    ..These molecular studies may help to explain the complicated associations observed between this polymorphism and the incidence of some cancers, the longevity of some populations, and the fecundity of different groups...
  38. pmc The origins and evolution of the p53 family of genes
    Vladimir A Belyi
    Institute for Advanced Study, Princeton, NJ 08540, USA
    Cold Spring Harb Perspect Biol 2:a001198. 2010
    ..Thus, this gene family has preserved its structural features and functional activities for over one billion years of evolution...
  39. doi request reprint Multiple roles of p53-related pathways in somatic cell reprogramming and stem cell differentiation
    Lan Yi
    The Cancer Institute of New Jersey, Institute for Advanced Study, Princeton, New Jersey 08540, USA
    Cancer Res 72:5635-45. 2012
    ..The production of iPSCs in culture from normal and cancer cells, although different from each other in several ways, both responded to the inhibition of reprogramming by the p53 protein...
  40. doi request reprint The regulation of the endosomal compartment by p53 the tumor suppressor gene
    Xin Yu
    The Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, NJ, USA
    FEBS J 276:2201-12. 2009
    ..These processes avoid errors during stress and restore homeostasis once the stress is resolved...
  41. ncbi request reprint p53: a new player in reproduction
    Wenwei Hu
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, New Jersey, USA
    Cell Cycle 7:848-52. 2008
    ..These findings of a new function for the p53 protein in reproduction may help to explain the observed evolutionary selection of some alleles of the p53 and Mdm2 genes. This may also be an excellent example of antagonistic pleiotrophy...
  42. pmc Detection of functional single-nucleotide polymorphisms that affect apoptosis
    Sandra L Harris
    Cancer Institute of New Jersey, Robert Wood Johnson Medical School University of Medicine and Dentistry of New Jersey, 195 Little Albany Street, New Brunswick, NJ 08903, USA
    Proc Natl Acad Sci U S A 102:16297-302. 2005
    ..Finally, the LCLs in the lowest apoptotic response group have the highest concentration of AKT1 protein and all harbor a haplotype in AKT1 that is present in Caucasians but absent in African Americans...
  43. pmc Association of nuclear localization of a long interspersed nuclear element-1 protein in breast tumors with poor prognostic outcomes
    Chris R Harris
    The Verto Institute, New Brunswick, NJ, USA
    Genes Cancer 1:115-24. 2010
    ..High expression and nuclear localization of L1-ORF1p may result in a higher rate of L1 retrotransposition, which could increase genomic instability...
  44. pmc Quantitative theory of entropic forces acting on constrained nucleotide sequences applied to viruses
    Benjamin D Greenbaum
    The Simons Center for Systems Biology, Institute for Advanced Study, Princeton, NJ 08540
    Proc Natl Acad Sci U S A 111:5054-9. 2014
    ..Essentially, we extend the natural language and concepts of statistical physics, such as entropy and conjugated forces, to understanding viral sequences and, more generally, constrained genome evolution. ..
  45. doi request reprint The genetics of the p53 pathway, apoptosis and cancer therapy
    Alexei Vazquez
    The Institute for Advanced Study, Einstein Drive, Princeton, New Jersey, 08540, USA
    Nat Rev Drug Discov 7:979-87. 2008
    ..Furthermore, inherited single nucleotide polymorphisms in p53 pathway genes could serve a similar purpose...
  46. pmc The regulation of energy metabolism and the IGF-1/mTOR pathways by the p53 protein
    Zhaohui Feng
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, NJ 08903, USA
    Trends Cell Biol 20:427-34. 2010
    ..The use of these alternative metabolic pathways is an integral part of both normal and oncogenic phenotypes...
  47. pmc Molecular classification of prostate cancer using curated expression signatures
    Elke K Markert
    Simons Center for Systems Biology, Institute for Advanced Study, Princeton, NJ 08540, USA
    Proc Natl Acad Sci U S A 108:21276-81. 2011
    ..This classification is independent of Gleason score and therefore provides useful unique molecular profiles for prostate cancer prognosis, helping to predict poor outcome in patients with low or average Gleason scores...
  48. pmc Fine-scale detection of population-specific linkage disequilibrium using haplotype entropy in the human genome
    Hideaki Mizuno
    The Simons Center for Systems Biology, Institute for Advanced Study, Princeton, New Jersey, USA
    BMC Genet 11:27. 2010
    ..Several methods have been proposed to detect linkage disequilibrium (LD), which is indicative of natural selection, from genome-wide profiles of common genetic variations but are designed for large regions...
  49. doi request reprint Higher order Boolean networks as models of cell state dynamics
    Elke K Markert
    Simons Center for Systems Biology, Institute for Advanced Study, 1 Einstein Dr, Princeton, NJ 08540, USA
    J Theor Biol 264:945-51. 2010
    ..Finally, we illustrate how the model can be expanded considering higher levels and higher order dynamics...
  50. pmc A relative-entropy algorithm for genomic fingerprinting captures host-phage similarities
    Harlan Robins
    Institute for Advanced Study, Natural Sciences, Einstein Drive, Princeton, NJ 08540, USA
    J Bacteriol 187:8370-4. 2005
    ..The methods developed here can be readily extended to other problems in bioinformatics...
  51. doi request reprint Non-random reassortment in human influenza A viruses
    Raul Rabadan
    Institute for Advanced Study, Einstein Dr, Princeton, NJ 08540, USA
    Influenza Other Respir Viruses 2:9-22. 2008
    ..This type of shift has been the source of at least two of the influenza pandemics in the 20th century (H2N2 in 1957 and H3N2 in 1968)...
  52. pmc Anomalies in the influenza virus genome database: new biology or laboratory errors?
    Michael Krasnitz
    Institute for Advanced Study, Einstein Dr, Princeton, New Jersey 08540, USA
    J Virol 82:8947-50. 2008
    ..These findings may point to surprising new biology but are perhaps more readily explained by stock contamination or other errors in the sequencing laboratories...
  53. ncbi request reprint A single nucleotide polymorphism in the MDM2 promoter attenuates the p53 tumor suppressor pathway and accelerates tumor formation in humans
    Gareth L Bond
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, NJ 08903, USA
    Cell 119:591-602. 2004
    ..In humans, SNP309 is shown to associate with accelerated tumor formation in both hereditary and sporadic cancers. A model is proposed whereby SNP309 serves as a rate-limiting event in carcinogenesis...
  54. pmc The Regulation of Multiple p53 Stress Responses is Mediated through MDM2
    Wenwei Hu
    Cancer Institute of New Jersey, University of Medicine and Dentistry of New Jersey, New Brunswick, NJ, USA
    Genes Cancer 3:199-208. 2012
    ..A better understanding of the complex regulation of MDM2 and its impact upon p53 function in cells under different conditions will help to develop novel and more effective strategies for cancer therapy and prevention...
  55. pmc Unexpected inheritance: multiple integrations of ancient bornavirus and ebolavirus/marburgvirus sequences in vertebrate genomes
    Vladimir A Belyi
    Simons Center for Systems Biology, Institute for Advanced Study, Princeton, New Jersey, USA
    PLoS Pathog 6:e1001030. 2010
    ..Clearly, the sources of genetic information in vertebrate genomes are much more diverse than previously suspected...
  56. pmc Patterns of oligonucleotide sequences in viral and host cell RNA identify mediators of the host innate immune system
    Benjamin D Greenbaum
    Institute for Advanced Study, Princeton, New Jersey, United States of America
    PLoS ONE 4:e5969. 2009
    ..This shows how differences in host immune biology can drive the evolution of viruses that jump into species with different immune priorities than the original host...
  57. pmc Suppression of immediate-early viral gene expression by herpesvirus-coded microRNAs: implications for latency
    Eain Murphy
    Simons Center for Systems Biology, Institute for Advanced Study, Princeton, NJ 08540, USA
    Proc Natl Acad Sci U S A 105:5453-8. 2008
    ..We propose that herpesviruses use microRNA-mediated suppression of immediate-early genes as part of their strategy to enter and maintain latency...
  58. pmc Comparison of avian and human influenza A viruses reveals a mutational bias on the viral genomes
    Raul Rabadan
    Institute for Advanced Study, Einstein Drive, Princeton, NJ 08540, USA
    J Virol 80:11887-91. 2006
    ..Additionally, we provide evidence supporting the hypothesis that the H1N1 influenza virus entered the human population just prior to the 1918 outbreak, with an earliest bound of 1910...
  59. pmc WISP-1 is a Wnt-1- and beta-catenin-responsive oncogene
    L Xu
    Department of Molecular Biology, Princeton University, Princeton, New Jersey 08544, USA
    Genes Dev 14:585-95. 2000
    ..Although these cells did not acquire anchorage-independent growth in soft agar, they readily formed tumors in nude mice, suggesting that appropriate cellular attachment is important for signaling oncogenic events downstream of WISP-1...
  60. pmc p53 responsive elements in human retrotransposons
    C R Harris
    Raymond and Beverly Sackler Foundation, New Brunswick, NJ 08540, USA
    Oncogene 28:3857-65. 2009
    ....
  61. pmc Identification of a mouse homolog of the human BTEB2 transcription factor as a beta-catenin-independent Wnt-1-responsive gene
    L T Ziemer
    Department of Molecular Biology, Princeton University, Princeton, New Jersey 08544, USA
    Mol Cell Biol 21:562-74. 2001
    ..These results suggest that mBTEB2 is a biologically relevant target of Wnt-1 signaling that is activated through a beta-catenin-independent, PKC-sensitive pathway in response to Wnt-1...
  62. ncbi request reprint High expression of lymphocyte-associated genes in node-negative HER2+ breast cancers correlates with lower recurrence rates
    Gabriela Alexe
    The Broad Institute of the Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, USA
    Cancer Res 67:10669-76. 2007
    ..These data suggest that early-stage HER2+ cancers associated with lymphocytic infiltration are a biologically distinct subtype with an improved natural history...
  63. pmc Tissue-specific codon usage and the expression of human genes
    Joshua B Plotkin
    Harvard Society of Fellows and Bauer Center for Genomics Research, Harvard University, 7 Divinity Avenue, Cambridge, MA 02138, USA
    Proc Natl Acad Sci U S A 101:12588-91. 2004
    ..Our findings suggest that codon-mediated translational control may play an important role in the differentiation and regulation of tissue-specific gene products in humans...
  64. doi request reprint The computational detection of functional nucleotide sequence motifs in the coding regions of organisms
    Harlan Robins
    Computational Biology Group, Fred Hutchinson Cancer Research Center, 1100 Fairview Ave N, Seattle, WA 98109, USA
    Exp Biol Med (Maywood) 233:665-73. 2008
    ....
  65. pmc MDM2 SNP309 accelerates colorectal tumour formation in women
    Gareth L Bond
    J Med Genet 43:950-2. 2006
    ....
  66. pmc Sequence analysis of p53 response-elements suggests multiple binding modes of the p53 tetramer to DNA targets
    Buyong Ma
    Basic Research Program, SAIC Frederick Inc, Center for Cancer Research Nanobiology Program, NCI Frederick, Frederick, MD 21702, USA
    Nucleic Acids Res 35:2986-3001. 2007
    ..We propose that the palindromic sequence couplings may encode such potential preferred multiple binding modes of the p53 tetramer to DNA...
  67. pmc Probing potential binding modes of the p53 tetramer to DNA based on the symmetries encoded in p53 response elements
    Buyong Ma
    Basic Research Program, SAIC Frederick, Inc, Center for Cancer Research Nanobiology Program, NCI Frederick, Frederick, MD 21702, USA
    Nucleic Acids Res 35:7733-47. 2007
    ..Our work suggests that p53 needs balanced binding modes to maintain genome stability. Inverse repeat p53REs favor the H14 mode and direct repeat p53REs may have high possibilities of other modes...
  68. pmc Highly conserved regions of influenza a virus polymerase gene segments are critical for efficient viral RNA packaging
    Glenn A Marsh
    Department of Microbiology, Mount Sinai School of Medicine, 1 Gustave L Levy Place, New York, NY 10029, USA
    J Virol 82:2295-304. 2008
    ..This work provides further evidence for a selective packaging mechanism for influenza A viruses, demonstrating that these highly conserved regions are important for efficient packaging...
  69. pmc p53 regulates cell survival by inhibiting PIK3CA in squamous cell carcinomas
    Bhuvanesh Singh
    Laboratory of Epithelial Cancer Biology, Memorial Sloan Kettering Cancer Center, New York, New York 10021, USA
    Genes Dev 16:984-93. 2002
    ..Thus, p53 regulates cell survival by inhibiting the PI3K/AKT prosurvival signal independent of PTEN in epithelial tumors. This inhibition is required for p53-mediated apoptosis in malignant cells...
  70. ncbi request reprint Stochastic gene expression in a single cell
    Michael B Elowitz
    Laboratory of Cancer Biology, Center for Studies in Physics and Biology, Rockefeller University, New York, NY 10021, USA
    Science 297:1183-6. 2002
    ..These results establish a quantitative foundation for modeling noise in genetic networks and reveal how low intracellular copy numbers of molecules can fundamentally limit the precision of gene regulation...
  71. pmc CIAP1 and the serine protease HTRA2 are involved in a novel p53-dependent apoptosis pathway in mammals
    Shengkan Jin
    Laboratory of Cancer Biology, Rockefeller University, New York, New York 10021, USA
    Genes Dev 17:359-67. 2003
    ..These results demonstrate that the mammalian p53 protein may activate apoptosis through a novel pathway functionally similar to that in Drosophila, which involves HTRA2 and subsequent inhibition of CIAP1 by cleavage...
  72. pmc The presence of p53 mutations in human osteosarcomas correlates with high levels of genomic instability
    Michael Overholtzer
    Laboratory of Cancer Biology, The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA
    Proc Natl Acad Sci U S A 100:11547-52. 2003
    ..These results demonstrate that the inactivation of p53 in osteosarcomas directly by mutation versus indirectly by HDM2 amplification may have different cellular consequences with respect to the stability of the genome...
  73. pmc Beclin 1, an autophagy gene essential for early embryonic development, is a haploinsufficient tumor suppressor
    Zhenyu Yue
    Laboratory of Molecular Biology, Howard Hughes Medical Institute, The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA
    Proc Natl Acad Sci U S A 100:15077-82. 2003
    ..They both provide a biological explanation for recent evidence implicating beclin 1 in human cancer and suggest that mutations in other genes operating in this pathway may contribute to tumor formation through deregulation of autophagy...
  74. pmc Activation of NF-kappaB and inhibition of p53-mediated apoptosis by API2/mucosa-associated lymphoid tissue 1 fusions promote oncogenesis
    Archontoula Stoffel
    Laboratory for Cancer Biology, The Rockefeller University, 1230 York Avenue, Box 290, New York, NY 10021, USA
    Proc Natl Acad Sci U S A 101:9079-84. 2004
    ..Furthermore, they provide evidence underlying the emerging role of the NF-kappaB signaling pathway in the inhibition of apoptosis...
  75. ncbi request reprint In the quest for stable rescuing mutants of p53: computational mutagenesis of flexible loop L1
    Yongping Pan
    Basic Research Program, SAIC Frederick, Incorporated, Laboratory of Experimental and Computational Biology, NCI Frederick, Frederick, Maryland 21702, USA
    Biochemistry 44:1423-32. 2005
    ..Linearity (i.e., nonbranched), moderate size, and balanced hydrophobic and hydrophilic properties of the side chain are crucial to the stabilizing effect of the residue substitutions...
  76. pmc Comparison of the protein-protein interfaces in the p53-DNA crystal structures: towards elucidation of the biological interface
    Buyong Ma
    Basic Research Program, SAIC Frederick, Inc, Laboratory of Experimental and Computational Biology, National Cancer Institute, Frederick, MD 21702, USA
    Proc Natl Acad Sci U S A 102:3988-93. 2005
    ..Thus, they have significant implications toward our understanding of DNA binding by p53 as well as p53-mediated interactions with other proteins...
  77. ncbi request reprint A chromatin-associated and transcriptionally inactive p53-Mdm2 complex occurs in mdm2 SNP309 homozygous cells
    Nicoleta C Arva
    Institute for Biomolecular Structure and Function and Department of Biological Sciences, Hunter College and Graduate School, City University of New York, New York, New York 10021, USA
    J Biol Chem 280:26776-87. 2005
    ..Our data suggest that overproduction of Mdm2, resulting from a naturally occurring SNP, inhibits chromatin-bound p53 from activating the transcription of its target genes...
  78. pmc A plausible model for the digital response of p53 to DNA damage
    Lan Ma
    IBM Thomas J Watson Research Center, Yorktown Heights, NY 10598, USA
    Proc Natl Acad Sci U S A 102:14266-71. 2005
    ..The damped oscillations previously observed in cell populations can be explained as the aggregate behavior of single cells...
  79. pmc Patterns of evolution and host gene mimicry in influenza and other RNA viruses
    Benjamin D Greenbaum
    BioMaPS Institute, Rutgers University, Piscataway, New Jersey, United States of America
    PLoS Pathog 4:e1000079. 2008
    ..As a possible explanation, we suggest that the strong selection pressures acting on these RNA viruses are most likely related to the innate immune response and to nucleotide motifs in the host DNA and RNAs...
  80. ncbi request reprint Epigenetic and genetic loss of Hic1 function accentuates the role of p53 in tumorigenesis
    Wenyong Chen
    Cancer Biology Program, Johns Hopkins Medical Institutions, 1650 Orleans Street, Baltimore, MD 21231, USA
    Cancer Cell 6:387-98. 2004
    ..Our results indicate the importance of genes altered only through epigenetic mechanisms in cancer progression in conjunction with genetically modified tumor suppressor genes...
  81. ncbi request reprint Beyond PTEN mutations: the PI3K pathway as an integrator of multiple inputs during tumorigenesis
    Megan Cully
    The Campbell Family Institute for Breast Cancer Research, University Health Network, University of Toronto, Toronto, Ontario M5G 2C1, Canada
    Nat Rev Cancer 6:184-92. 2006
    ..How does the PI3K pathway integrate signals from numerous sources, and how can this information be used in the rational design of cancer therapies?..
  82. ncbi request reprint The contribution of the Trp/Met/Phe residues to physical interactions of p53 with cellular proteins
    Buyong Ma
    Basic Research Program, SAIC Frederick, Inc, Laboratory of Experimental and Computational Biology, NCI Frederick, Frederick, MD 21702, USA
    Phys Biol 2:S56-66. 2005
    ..Met384/Phe385 in the C-terminal region interacts with the S100B protein and the Bromodomain of the CBP protein. Thus, these residues may assist in elucidating the p53 interactions when structural data are not available...