Douglas M Ruden

Summary

Affiliation: Wayne State University
Country: USA

Publications

  1. ncbi Evidence for an epigenetic mechanism by which Hsp90 acts as a capacitor for morphological evolution
    Vincent Sollars
    Kimmel Cancer Institute, Thomas Jefferson University, Philadelphia, Pennsylvania 19107, USA
    Nat Genet 33:70-4. 2003
  2. ncbi CloudAligner: A fast and full-featured MapReduce based tool for sequence mapping
    Tung Nguyen
    Computer Science Department, Wayne State University, US
    BMC Res Notes 4:171. 2011
  3. ncbi The EDGE hypothesis: epigenetically directed genetic errors in repeat-containing proteins (RCPs) involved in evolution, neuroendocrine signaling, and cancer
    Douglas M Ruden
    Institute of Environmental Health Sciences, Wayne State University, Room 4000, 2727 2nd Avenue, Detroit, MI 48201, USA
    Front Neuroendocrinol 29:428-44. 2008
  4. ncbi Potential long-term consequences of fad diets on health, cancer, and longevity: lessons learned from model organism studies
    Douglas M Ruden
    Institute for Environmental, Health Sciences, 2727 2nd Avenue, Room 4000, Wayne State University, Detroit, MI 48201, USA
    Technol Cancer Res Treat 6:247-54. 2007
  5. ncbi Genetical toxicogenomics in Drosophila identifies master-modulatory loci that are regulated by developmental exposure to lead
    Douglas M Ruden
    Institute of Environmental Health Sciences, Wayne State University, Detroit, MI 48201 2654, USA
    Neurotoxicology 30:898-914. 2009
  6. ncbi A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3
    Pablo Cingolani
    Institute of Environmental Health Sciences, Wayne State University, Detroit, MI, USA
    Fly (Austin) 6:80-92. 2012
  7. ncbi Massively parallel resequencing of the isogenic Drosophila melanogaster strain w(1118); iso-2; iso-3 identifies hotspots for mutations in sensory perception genes
    Adrian E Platts
    The Center for Molecular Medicine and Genetics, Department of Obstetrics and Gynecology, Wayne State University School of Medicine, Detroit, MI, USA
    Fly (Austin) 3:192-203. 2009
  8. ncbi Hsp90 inhibitors and drug resistance in cancer: the potential benefits of combination therapies of Hsp90 inhibitors and other anti-cancer drugs
    Xiangyi Lu
    Institute of Environmental Health Sciences, Wayne State University, Detroit, MI 48201, United States
    Biochem Pharmacol 83:995-1004. 2012
  9. ncbi Using Drosophila melanogaster as a Model for Genotoxic Chemical Mutational Studies with a New Program, SnpSift
    Pablo Cingolani
    Institute of Environmental Health Sciences, Wayne State University Detroit, MI, USA
    Front Genet 3:35. 2012
  10. ncbi Hypothesis: environmental regulation of 5-hydroxymethylcytosine by oxidative stress
    Nancy Chia
    Institute of Environmental Health Sciences, Department of Obstetrics and Gynecology, Wayne State University, Detroit, MI, USA
    Epigenetics 6:853-6. 2011

Research Grants

  1. QTL AND MICROARRAY MAPPING LEAD SENSITIVITY GENES
    Douglas Ruden; Fiscal Year: 2007
  2. Epigenetics of Dietary and Body Fat in Drosophila
    Douglas Ruden; Fiscal Year: 2006
  3. GLUTAMATE BIOSYNTHESIS MUTANTS AND ALCOHOL SENSITIVITY
    Douglas Ruden; Fiscal Year: 2003
  4. Toxicogenomics of Lead, Mercury, and Cadmium
    Douglas Ruden; Fiscal Year: 2003
  5. Dominant Mutation that Affect EGF-R Signal Transduction
    Douglas Ruden; Fiscal Year: 2003

Collaborators

  • Grier P Page
  • Mark D Garfinkel
  • Barry R Zeeberg
  • John N Weinstein
  • Helmut V B Hirsch
  • Xiangyi Lu
  • Li Xiao
  • Pablo Cingolani
  • Tung Nguyen
  • Luan Wang
  • Susan J Land
  • Melissa Coon
  • Nancy Chia
  • Adrian E Platts
  • Parsa Rasouli
  • Jiatao Ye
  • Zhiqian Gao
  • Vincent Sollars
  • Le Lily Wang
  • Viral M Patel
  • Adrian Platts
  • Carol Brenner
  • Mary Claude Senut
  • Weisong Shi
  • Lang Chen
  • Maria De Luca
  • Ann Loraine
  • Kerry Bynum
  • Nam Chul Kim
  • Xiangqin Cui
  • Gregory White
  • Xiaoyan Wang

Detail Information

Publications20

  1. ncbi Evidence for an epigenetic mechanism by which Hsp90 acts as a capacitor for morphological evolution
    Vincent Sollars
    Kimmel Cancer Institute, Thomas Jefferson University, Philadelphia, Pennsylvania 19107, USA
    Nat Genet 33:70-4. 2003
    ..These findings suggest that Hsp90 acts as a capacitor for morphological evolution through epigenetic and genetic mechanisms...
  2. ncbi CloudAligner: A fast and full-featured MapReduce based tool for sequence mapping
    Tung Nguyen
    Computer Science Department, Wayne State University, US
    BMC Res Notes 4:171. 2011
    ..abstract:..
  3. ncbi The EDGE hypothesis: epigenetically directed genetic errors in repeat-containing proteins (RCPs) involved in evolution, neuroendocrine signaling, and cancer
    Douglas M Ruden
    Institute of Environmental Health Sciences, Wayne State University, Room 4000, 2727 2nd Avenue, Detroit, MI 48201, USA
    Front Neuroendocrinol 29:428-44. 2008
    ..In the model, "epigenetic assimilation" of metastable epialleles of RCPs over many generations can lead to mutations directed to those genes, thereby permanently stabilizing the adaptive phenotype...
  4. ncbi Potential long-term consequences of fad diets on health, cancer, and longevity: lessons learned from model organism studies
    Douglas M Ruden
    Institute for Environmental, Health Sciences, 2727 2nd Avenue, Room 4000, Wayne State University, Detroit, MI 48201, USA
    Technol Cancer Res Treat 6:247-54. 2007
    ....
  5. ncbi Genetical toxicogenomics in Drosophila identifies master-modulatory loci that are regulated by developmental exposure to lead
    Douglas M Ruden
    Institute of Environmental Health Sciences, Wayne State University, Detroit, MI 48201 2654, USA
    Neurotoxicology 30:898-914. 2009
    ..For these 33 genes, rather than allelic variation at one locus exerting differential effects in two environments, we found that variation at two different loci are required for optimal effects on lead-induced expression...
  6. ncbi A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3
    Pablo Cingolani
    Institute of Environmental Health Sciences, Wayne State University, Detroit, MI, USA
    Fly (Austin) 6:80-92. 2012
    ..As genome sequencing is becoming inexpensive and routine, SnpEff enables rapid analyses of whole-genome sequencing data to be performed by an individual laboratory...
  7. ncbi Massively parallel resequencing of the isogenic Drosophila melanogaster strain w(1118); iso-2; iso-3 identifies hotspots for mutations in sensory perception genes
    Adrian E Platts
    The Center for Molecular Medicine and Genetics, Department of Obstetrics and Gynecology, Wayne State University School of Medicine, Detroit, MI, USA
    Fly (Austin) 3:192-203. 2009
    ..Because of the dramatic increase in power in using isogenic lines rather than outbred individuals, the SNP information should be valuable as a test bed for understanding genotype-by-environment interactions in human population studies...
  8. ncbi Hsp90 inhibitors and drug resistance in cancer: the potential benefits of combination therapies of Hsp90 inhibitors and other anti-cancer drugs
    Xiangyi Lu
    Institute of Environmental Health Sciences, Wayne State University, Detroit, MI 48201, United States
    Biochem Pharmacol 83:995-1004. 2012
    ..We also discuss recent results from yeast focused on the genetics of drug resistance when Hsp90 is inhibited and the implications that this might have in understanding the effects of genetic variation in treating cancer in humans...
  9. ncbi Using Drosophila melanogaster as a Model for Genotoxic Chemical Mutational Studies with a New Program, SnpSift
    Pablo Cingolani
    Institute of Environmental Health Sciences, Wayne State University Detroit, MI, USA
    Front Genet 3:35. 2012
    ..This technique can also be used to characterize the variety of mutations generated by genotoxic chemicals...
  10. ncbi Hypothesis: environmental regulation of 5-hydroxymethylcytosine by oxidative stress
    Nancy Chia
    Institute of Environmental Health Sciences, Department of Obstetrics and Gynecology, Wayne State University, Detroit, MI, USA
    Epigenetics 6:853-6. 2011
    ..We will also discuss how 5-hmC and 5-mC levels at the promoters of specific genes might be a useful biomarker for exposure to environmental toxins...
  11. ncbi Hsp90 affecting chromatin remodeling might explain transgenerational epigenetic inheritance in Drosophila
    Douglas M Ruden
    Wayne State University, Institute for Environmental Health Sciences, 2727 2 Ave, Room 4000, Detroit, MI 48201, USA
    Curr Genomics 9:500-8. 2008
    ....
  12. ncbi Hsp90 and environmental impacts on epigenetic states: a model for the trans-generational effects of diethylstibesterol on uterine development and cancer
    Douglas M Ruden
    Department of Environmental Health Sciences, University of Alabama at Birmingham, 35294 0022, USA
    Hum Mol Genet 14:R149-55. 2005
    ..This model suggests that inhibitors of Hsp90, WNT signaling and chromatin-remodeling enzymes might function as anticancer agents by interfering with epigenetic reprogramming and canalization in cancer stem cells...
  13. ncbi Methods for nutrigenomics and longevity studies in Drosophila: effects of diets high in sucrose, palmitic acid, soy, or beef
    Jiatao Ye
    Department of Environmental Health Sciences, University of Alabama at Birmingham, Birmingham, AL, USA
    Methods Mol Biol 371:111-41. 2007
    ..The significance of these results and other types of nutrigenomics and longevity analyses is discussed...
  14. ncbi Possible effects of early treatments of hsp90 inhibitors on preventing the evolution of drug resistance to other anti-cancer drugs
    Li Xiao
    Department of Environmental Health Sciences, University of Alabama at Birmingham, Birmingham, AL 35294 0022, USA
    Curr Med Chem 14:223-32. 2007
    ....
  15. ncbi Effectiveness of hsp90 inhibitors as anti-cancer drugs
    Li Xiao
    Department of Environmental Health Sciences, 1530 Ryals Public Health Building, University of Alabama at Birmingham, Birmingham, AL 35294, USA
    Mini Rev Med Chem 6:1137-43. 2006
    ..In this mini-review, we present hypothetical mechanisms for Hsp90 inhibitors in treating cancers, preliminary studies in early clinical trials, and potential tumor-killing and tumor-promoting activities of Hsp90 inhibitors...
  16. ncbi Drosophila nutrigenomics can provide clues to human gene-nutrient interactions
    Douglas M Ruden
    Department of Environmental Health Sciences, University of Alabama at Birmingham, Alabama 35294, USA
    Annu Rev Nutr 25:499-522. 2005
    ..This review summarizes what has already been learned in Drosophila nutrigenomics (with an emphasis on lipids and sterols), critically evaluates the data, and discusses fruitful areas for future research...
  17. ncbi Multigenerational selection and detection of altered histone acetylation and methylation patterns: toward a quantitative epigenetics in Drosophila
    Mark D Garfinkel
    Department of Environmental Health Sciences, University of Alabama, Birmingham, USA
    Methods Mol Biol 287:151-68. 2004
    ..In this chapter, we present a case study for QE analysis-epigenetic mapping of enhancers of the KrIf-1 ectopic eye bristle phenotype in an isogenic strain of Drosophila melanogaster...
  18. ncbi Waddington's widget: Hsp90 and the inheritance of acquired characters
    Douglas M Ruden
    Department of Environmental Health Sciences, University of Alabama at Birmingham, Ryals Public Health Building, 1665 University Boulevard, Birmingham, AL 35294 0022, USA
    Semin Cell Dev Biol 14:301-10. 2003
    ..This review will discuss evidence for, and arguments against, the role of Hsp90 as a capacitor for morphological evolution, and as a key component of what we call "Waddington's widget."..
  19. ncbi Chromatin effects in nutrition, cancer, and obesity
    Mark D Garfinkel
    Department of Environmental Health Sciences, University of Alabama at Birmingham, Birmingham, Alabama 35294, USA
    Nutrition 20:56-62. 2004
  20. ncbi PKD2 cation channel is required for directional sperm movement and male fertility
    Zhiqian Gao
    Department of Environmental Health Sciences, University of Alabama at Birmingham, Birmingham, AL 35294, USA
    Curr Biol 13:2175-8. 2003
    ..Our data demonstrate that the Drosophila PKD2 cation channel operates in sperm for directional movement inside the female reproductive tract...

Research Grants20

  1. QTL AND MICROARRAY MAPPING LEAD SENSITIVITY GENES
    Douglas Ruden; Fiscal Year: 2007
    ..abstract_text> ..
  2. Epigenetics of Dietary and Body Fat in Drosophila
    Douglas Ruden; Fiscal Year: 2006
    ..abstract_text> ..
  3. GLUTAMATE BIOSYNTHESIS MUTANTS AND ALCOHOL SENSITIVITY
    Douglas Ruden; Fiscal Year: 2003
    ..This genetic approach would eventually lead to a better understanding to a better understanding of the genetic influences that underlie risk for alcoholism. ..
  4. Toxicogenomics of Lead, Mercury, and Cadmium
    Douglas Ruden; Fiscal Year: 2003
    ....
  5. Dominant Mutation that Affect EGF-R Signal Transduction
    Douglas Ruden; Fiscal Year: 2003
    ..It is important to understand regulators of RTK signaling because Ras-Raf dependent neoplasia accounts for as many as one-fifth of all human cancers. ..