Rw Doerge

Summary

Affiliation: Purdue University
Country: USA

Publications

  1. ncbi request reprint Mapping and analysis of quantitative trait loci in experimental populations
    Rebecca W Doerge
    Department of Statistics, and Department of Agronomy, and Computational Genomics, Purdue University, West Lafayette, Indiana 47907 1399, USA
    Nat Rev Genet 3:43-52. 2002
  2. ncbi request reprint A two-step multiple comparison procedure for a large number of tests and multiple treatments
    Hongmei Jiang
    Northwestern University, USA
    Stat Appl Genet Mol Biol 5:Article28. 2006
  3. pmc Molecular response to the pathogen Phytophthora sojae among ten soybean near isogenic lines revealed by comparative transcriptomics
    Feng Lin
    Department of Agronomy, Purdue University, West Lafayette, IN 47907, USA
    BMC Genomics 15:18. 2014
  4. ncbi request reprint Differential expression--the next generation and beyond
    Paul L Auer
    Fred Hutchinson Cancer Research Center, Seattle, WA, USA
    Brief Funct Genomics 11:57-62. 2012
  5. pmc Combining Affymetrix microarray results
    John R Stevens
    Department of Statistics, Purdue University, 150 N, University Street, West Lafayette, Indiana 47907 2067, USA
    BMC Bioinformatics 6:57. 2005
  6. pmc Identification of QTLs controlling gene expression networks defined a priori
    Daniel J Kliebenstein
    University of California Davis, Department of Plant Sciences, Mail Stop 3, One Shields Ave, Davis, CA 95616 8780, USA
    BMC Bioinformatics 7:308. 2006
  7. pmc A semi-nonparametric mixture model for selecting functionally consistent proteins
    Lianbo Yu
    Department of Statistics, Purdue University, West Lafayette, IN 47907, USA
    BMC Bioinformatics 11:486. 2010
  8. ncbi request reprint An empirical Bayesian method for estimating biological networks from temporal microarray data
    Andrea Rau
    Purdue University, INRA AgroParisTech, USA
    Stat Appl Genet Mol Biol 9:Article 9. 2010
  9. pmc Correct estimation of preferential chromosome pairing in autotetraploids
    Dachuang Cao
    Department of Statistics and Purdue University, West Lafayette, Indiana 47907, USA
    Genome Res 14:459-62. 2004
  10. pmc Natural variation among Arabidopsis thaliana accessions for transcriptome response to exogenous salicylic acid
    Hans van Leeuwen
    Department of Plant Sciences, University of California, Davis, California 95616, USA
    Plant Cell 19:2099-110. 2007

Collaborators

  • Hongmei Jiang
  • Florence Jaffrezic
  • Andrea Rau
  • Danielj Kliebenstein
  • L Comai
  • Robert A Martienssen
  • Marilyn A L West
  • Fumiaki Katagiri
  • C Teuscher
  • Feng Lin
  • Paul L Auer
  • Lianbo Yu
  • Hans van Leeuwen
  • John R Stevens
  • Andreas Madlung
  • Dachuang Cao
  • Zachary Lippman
  • Zongxiang Tang
  • Douglas D Baumann
  • Lianjun Sun
  • Jieqing Ping
  • Randall J Roper
  • Jianxin Ma
  • Teresa J Hughes
  • Meixia Zhao
  • Yunfeng Liu
  • Elisa Hughes
  • Biao Zhang
  • Sanvesh Srivastava
  • Remco van Poecke
  • Kyunga Kim
  • Richard W Michelmore
  • Dina A St Clair
  • Brian Watson
  • Trevor Kagochi
  • Anand P Tyagi
  • Matthew W Vaughn
  • James C Carrington
  • W Richard McCombie
  • Neilay Dedhia
  • Kristin D Kasschau
  • Vincent Colot
  • Bruce May
  • Thomas C Osborn
  • Anne Valerie Gendrel
  • Kimberly Lavine
  • Vivek Mittal
  • Michael Black
  • Runlin Z Ma
  • Russell J Butterfield
  • Julia E Biggins
  • Kenneth S K Tung
  • Sandra D Michael

Detail Information

Publications15

  1. ncbi request reprint Mapping and analysis of quantitative trait loci in experimental populations
    Rebecca W Doerge
    Department of Statistics, and Department of Agronomy, and Computational Genomics, Purdue University, West Lafayette, Indiana 47907 1399, USA
    Nat Rev Genet 3:43-52. 2002
    ....
  2. ncbi request reprint A two-step multiple comparison procedure for a large number of tests and multiple treatments
    Hongmei Jiang
    Northwestern University, USA
    Stat Appl Genet Mol Biol 5:Article28. 2006
    ..When compared via simulation the two-step approach has increased power over a one-step procedure, and controls the FDR at a desire significance level...
  3. pmc Molecular response to the pathogen Phytophthora sojae among ten soybean near isogenic lines revealed by comparative transcriptomics
    Feng Lin
    Department of Agronomy, Purdue University, West Lafayette, IN 47907, USA
    BMC Genomics 15:18. 2014
    ..We thus sequenced, analyzed, and compared the transcriptomes of 10 near isogenic lines (NILs), each with a unique Rps gene/allele, and the susceptible parent Williams, pre- and post-inoculation with the pathogen...
  4. ncbi request reprint Differential expression--the next generation and beyond
    Paul L Auer
    Fred Hutchinson Cancer Research Center, Seattle, WA, USA
    Brief Funct Genomics 11:57-62. 2012
    ..With this in mind, we provide a brief review of some of the key challenges that are general to all RNA-seq experiments, namely experimental design, statistical analysis and dimensionality reduction...
  5. pmc Combining Affymetrix microarray results
    John R Stevens
    Department of Statistics, Purdue University, 150 N, University Street, West Lafayette, Indiana 47907 2067, USA
    BMC Bioinformatics 6:57. 2005
    ..Although the experimental specifics are similar, typically a different list of statistically significant genes result from each data analysis...
  6. pmc Identification of QTLs controlling gene expression networks defined a priori
    Daniel J Kliebenstein
    University of California Davis, Department of Plant Sciences, Mail Stop 3, One Shields Ave, Davis, CA 95616 8780, USA
    BMC Bioinformatics 7:308. 2006
    ..Since genes are also known to respond as groups due to their membership in networks, effective approaches are needed to investigate transcriptome variation as related to gene network responses...
  7. pmc A semi-nonparametric mixture model for selecting functionally consistent proteins
    Lianbo Yu
    Department of Statistics, Purdue University, West Lafayette, IN 47907, USA
    BMC Bioinformatics 11:486. 2010
    ..One of the largest of these challenges is the selection of functionally consistent proteins...
  8. ncbi request reprint An empirical Bayesian method for estimating biological networks from temporal microarray data
    Andrea Rau
    Purdue University, INRA AgroParisTech, USA
    Stat Appl Genet Mol Biol 9:Article 9. 2010
    ..The R and C code used to implement the proposed method are publicly available in the R package ebdbNet...
  9. pmc Correct estimation of preferential chromosome pairing in autotetraploids
    Dachuang Cao
    Department of Statistics and Purdue University, West Lafayette, Indiana 47907, USA
    Genome Res 14:459-62. 2004
    ..Our results directly contradict the current findings of significant preferential pairing and affirm the traditional view of random chromosome segregation in alfalfa...
  10. pmc Natural variation among Arabidopsis thaliana accessions for transcriptome response to exogenous salicylic acid
    Hans van Leeuwen
    Department of Plant Sciences, University of California, Davis, California 95616, USA
    Plant Cell 19:2099-110. 2007
    ..Expression level polymorphisms for SA response were abundant at both individual gene and gene-network levels in the seven accessions, suggesting that natural variation for SA response is prevalent in Arabidopsis...
  11. ncbi request reprint Genomic changes in synthetic Arabidopsis polyploids
    Andreas Madlung
    Department of Biology, University of Washington, Seattle, WA 98195, USA
    Plant J 41:221-30. 2005
    ..Activity of selected DNA transposons and the possibly related chromosomal breaks could cause changes by inducing translocations and rearrangements...
  12. ncbi request reprint Role of transposable elements in heterochromatin and epigenetic control
    Zachary Lippman
    Watson School of Biological Sciences and Cold Spring Harbor Laboratory, Cold Spring Harbor, New York 11724, USA
    Nature 430:471-6. 2004
    ..This probably accounts for the regulation by DDM1 and the DNA methyltransferase MET1 of the euchromatic, imprinted gene FWA, as its promoter is provided by transposable-element-derived tandem repeats that are associated with siRNAs...
  13. ncbi request reprint Interacting quantitative trait loci control loss of peripheral tolerance and susceptibility to autoimmune ovarian dysgenesis after day 3 thymectomy in mice
    Randall J Roper
    Department of Veterinary Pathobiology, University of Illinois, Urbana, IL 61802, USA
    J Immunol 169:1640-6. 2002
    ....