Kenneth F Manly

Summary

Affiliation: University of Tennessee
Country: USA

Publications

  1. ncbi request reprint Reliability of statistical associations between genes and disease
    Kenneth F Manly
    Pathology and Laboratory Medicine, Anatomy and Neurobiology, Center of Genomics and Bioinformatics, University of Tennessee Health Science Center, Memphis, USA
    Immunogenetics 57:549-58. 2005
  2. pmc Weighting by heritability for detection of quantitative trait loci with microarray estimates of gene expression
    Kenneth F Manly
    Department of Pathology, University of Tennessee Health Science Center, 855 Monroe Avenue, Memphis, TN 38163, USA
    Genome Biol 6:R27. 2005
  3. ncbi request reprint Genomics, prior probability, and statistical tests of multiple hypotheses
    Kenneth F Manly
    Department of Molecular and Cellular Biology, Roswell Park Cancer Institute, Buffalo, New York 14263, USA
    Genome Res 14:997-1001. 2004
  4. ncbi request reprint Integrative genetic analysis of transcription modules: towards filling the gap between genetic loci and inherited traits
    Hongqiang Li
    Department of Molecular Sciences, University of Tennessee Health Science Center, 858 Madison Avenue Memphis, TN 38163, USA
    Hum Mol Genet 15:481-92. 2006
  5. pmc Genetic networks controlling retinal injury
    Felix R Vazquez-Chona
    Department of Ophthalmology, The Hamilton Eye Institute, University of Tennessee Health Science Center, Memphis, TN 38163, USA
    Mol Vis 11:958-70. 2005
  6. ncbi request reprint Inferring gene transcriptional modulatory relations: a genetical genomics approach
    Hongqiang Li
    Department of Molecular Sciences, University of Tennessee Health Science Center, Memphis, TN 38163, USA
    Hum Mol Genet 14:1119-25. 2005
  7. ncbi request reprint Genetic correlates of gene expression in recombinant inbred strains: a relational model system to explore neurobehavioral phenotypes
    Elissa J Chesler
    Department of Anatomy and Neurobiology, Center for Genomics and Bioinformatics, University of Tennessee Health Science Center, Memphis, TN, USA
    Neuroinformatics 1:343-57. 2003
  8. ncbi request reprint WebQTL: rapid exploratory analysis of gene expression and genetic networks for brain and behavior
    Elissa J Chesler
    Department of Anatomy and Neurobiology, Center for Genomics and Bioinformatics, University of Tennessee Health Science Center, 855 Monroe Avenue, Memphis, Tennessee 38163, USA
    Nat Neurosci 7:485-6. 2004
  9. ncbi request reprint How replicable are mRNA expression QTL?
    Jeremy L Peirce
    Center for Neuroscience, Department of Anatomy and Neurobiology, University of Tennessee Health Science Center, Memphis, TN 38163, USA
    Mamm Genome 17:643-56. 2006
  10. ncbi request reprint Complex trait analysis of gene expression uncovers polygenic and pleiotropic networks that modulate nervous system function
    Elissa J Chesler
    University of Tennessee Health Science Center, 855 Monroe Avenue, Memphis, Tennessee 38163, USA
    Nat Genet 37:233-42. 2005

Collaborators

Detail Information

Publications20

  1. ncbi request reprint Reliability of statistical associations between genes and disease
    Kenneth F Manly
    Pathology and Laboratory Medicine, Anatomy and Neurobiology, Center of Genomics and Bioinformatics, University of Tennessee Health Science Center, Memphis, USA
    Immunogenetics 57:549-58. 2005
    ..Three intervening classes, described as second-, third-, and fourth-class associations, are defined by P values separated by factors of 20 or 25 from these extremes...
  2. pmc Weighting by heritability for detection of quantitative trait loci with microarray estimates of gene expression
    Kenneth F Manly
    Department of Pathology, University of Tennessee Health Science Center, 855 Monroe Avenue, Memphis, TN 38163, USA
    Genome Biol 6:R27. 2005
    ..This heritability varies greatly. We have tested heritability-weighted averages to define expression of a transcript and found that these allow detection of more QTLs than previously described methods...
  3. ncbi request reprint Genomics, prior probability, and statistical tests of multiple hypotheses
    Kenneth F Manly
    Department of Molecular and Cellular Biology, Roswell Park Cancer Institute, Buffalo, New York 14263, USA
    Genome Res 14:997-1001. 2004
  4. ncbi request reprint Integrative genetic analysis of transcription modules: towards filling the gap between genetic loci and inherited traits
    Hongqiang Li
    Department of Molecular Sciences, University of Tennessee Health Science Center, 858 Madison Avenue Memphis, TN 38163, USA
    Hum Mol Genet 15:481-92. 2006
    ....
  5. pmc Genetic networks controlling retinal injury
    Felix R Vazquez-Chona
    Department of Ophthalmology, The Hamilton Eye Institute, University of Tennessee Health Science Center, Memphis, TN 38163, USA
    Mol Vis 11:958-70. 2005
    ..The present study defines genomic loci underlying coordinate changes in gene expression following retinal injury...
  6. ncbi request reprint Inferring gene transcriptional modulatory relations: a genetical genomics approach
    Hongqiang Li
    Department of Molecular Sciences, University of Tennessee Health Science Center, Memphis, TN 38163, USA
    Hum Mol Genet 14:1119-25. 2005
    ..SNPs that distinguish between the two progenitor strains were used to further winnow the list of candidate modulators. Bayesian network was then used to identify the genetic modulatory relations that best explain the microarray data...
  7. ncbi request reprint Genetic correlates of gene expression in recombinant inbred strains: a relational model system to explore neurobehavioral phenotypes
    Elissa J Chesler
    Department of Anatomy and Neurobiology, Center for Genomics and Bioinformatics, University of Tennessee Health Science Center, Memphis, TN, USA
    Neuroinformatics 1:343-57. 2003
    ..By repeatedly studying the same panel of mice, early data can be re-examined in light of technological advances unforeseen at the time of their initial collection...
  8. ncbi request reprint WebQTL: rapid exploratory analysis of gene expression and genetic networks for brain and behavior
    Elissa J Chesler
    Department of Anatomy and Neurobiology, Center for Genomics and Bioinformatics, University of Tennessee Health Science Center, 855 Monroe Avenue, Memphis, Tennessee 38163, USA
    Nat Neurosci 7:485-6. 2004
  9. ncbi request reprint How replicable are mRNA expression QTL?
    Jeremy L Peirce
    Center for Neuroscience, Department of Anatomy and Neurobiology, University of Tennessee Health Science Center, Memphis, TN 38163, USA
    Mamm Genome 17:643-56. 2006
    ..Finally, we note that while trans-acting QTL do not replicate well between data sets in general, at least one cluster of trans-acting QTL on distal Chr 1 is notably preserved between data sets...
  10. ncbi request reprint Complex trait analysis of gene expression uncovers polygenic and pleiotropic networks that modulate nervous system function
    Elissa J Chesler
    University of Tennessee Health Science Center, 855 Monroe Avenue, Memphis, Tennessee 38163, USA
    Nat Genet 37:233-42. 2005
    ..We built these tools into an open web resource called WebQTL that can be used to test a broad array of hypotheses...
  11. ncbi request reprint An ENU-induced mutation in Rs1h causes disruption of retinal structure and function
    Monica M Jablonski
    Department of Ophthalmology, University of Tennessee Health Science Center and Tennessee Mouse Genome Consortium, Memphis, TN, USA
    Mol Vis 11:569-81. 2005
    ..Herein we present its retinal phenotype and genetic basis...
  12. ncbi request reprint WebQTL: web-based complex trait analysis
    Jintao Wang
    Department of Molecular and Cellular Biology, Roswell Park Cancer Institute, Buffalo, NY, USA
    Neuroinformatics 1:299-308. 2003
    ..A search function finds correlations between RNA expression and biological traits, and mapping functions find QTLs for either type of trait. The WebQTL service is available at http://www.webqtl.org/...
  13. ncbi request reprint Informatics center for mouse genomics: the dissection of complex traits of the nervous system
    Glenn D Rosen
    Department of Neurology, Division of Behavioral Neurology, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02215, USA
    Neuroinformatics 1:327-42. 2003
    ..Finally, WebQTL provides statistical and graphical analysis of linkage between phenotypes and genotypes...
  14. pmc Quantitative trait locus analysis using recombinant inbred intercrosses: theoretical and empirical considerations
    Fei Zou
    Department of Biostatistics, Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    Genetics 170:1299-311. 2005
    ....
  15. pmc Genome-level analysis of genetic regulation of liver gene expression networks
    Daniel Gatti
    Department of Environmental Sciences and Engineering, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, USA
    Hepatology 46:548-57. 2007
    ..genenetwork.org) that allows custom data mining, identification of coregulated transcripts and correlated phenotypes, cross-tissue, and cross-species comparisons, as well as testing of a broad array of hypotheses...
  16. pmc The nature and identification of quantitative trait loci: a community's view
    Oduola Abiola
    Nat Rev Genet 4:911-6. 2003
    ..Quantitative trait loci (QTLs) can be identified in several ways, but is there a definitive test of whether a candidate locus actually corresponds to a specific QTL?..
  17. pmc Combined expression trait correlations and expression quantitative trait locus mapping
    Hong Lan
    Department of Biochemistry, University of Wisconsin, Madison, Wisconsin, USA
    PLoS Genet 2:e6. 2006
    ..The combined analysis is more sensitive compared with linkage mapping alone...
  18. ncbi request reprint Conventional P-values fail to assure reproducibility for genetic association tests
    Kenneth F Manly
    Trends Genet 21:268-9; author reply 269-71. 2005
  19. ncbi request reprint Uncovering regulatory pathways that affect hematopoietic stem cell function using 'genetical genomics'
    Leonid Bystrykh
    Department of Stem Cell Biology, University of Groningen, Antonius Deusinglaan 1, 9713 AV Groningen, The Netherlands
    Nat Genet 37:225-32. 2005
    ..Our data are accessible through WebQTL, a web-based interface that allows custom genetic linkage analysis and identification of coregulated transcripts...
  20. ncbi request reprint An informatics approach to systems neurogenetics
    Glenn D Rosen
    Department of Neurology, Beth Israel Deaconess Medical Center and Harvard Medical School, Boston, MA, USA
    Methods Mol Biol 401:287-303. 2007
    ..Taken together, these tools enable the user to begin to assess complex interactions of gene networks, and facilitate analysis of traits using a systems approach...