title: Computational genetics analysis of grey matter density in Alzheimer's disease.
abstract: BACKGROUND
  Alzheimer's disease is the most common form of progressive dementia and there is currently no known cure. The cause of onset is not fully understood but genetic factors are expected to play a significant role. We present here a bioinformatics approach to the genetic analysis of grey matter density as an endophenotype for late onset Alzheimer's disease. Our approach combines machine learning analysis of gene-gene interactions with large-scale functional genomics data for assessing biological relationships.
  
  
  RESULTS
  We found a statistically significant synergistic interaction among two SNPs located in the intergenic region of an olfactory gene cluster. This model did not replicate in an independent dataset. However, genes in this region have high-confidence biological relationships and are consistent with previous findings implicating sensory processes in Alzheimer's disease.
  
  
  CONCLUSIONS
  Previous genetic studies of Alzheimer's disease have revealed only a small portion of the overall variability due to DNA sequence differences. Some of this missing heritability is likely due to complex gene-gene and gene-environment interactions. We have introduced here a novel bioinformatics analysis pipeline that embraces the complexity of the genetic architecture of Alzheimer's disease while at the same time harnessing the power of functional genomics. These findings represent novel hypotheses about the genetic basis of this complex disease and provide open-access methods that others can use in their own studies.
authors.affiliation: Department of Genetics, Institute for Quantitative Biomedical Sciences, Geisel School of Medicine, Dartmouth College, Hanover, New Hampshire 03755, USA.
authors.forename: Amanda L
authors.initials: AL
authors.lastname: Zieselman
authors.affiliation: Department of Genetics, Institute for Quantitative Biomedical Sciences, Geisel School of Medicine, Dartmouth College, Hanover, New Hampshire 03755, USA.
authors.forename: Jonathan M
authors.initials: JM
authors.lastname: Fisher
authors.affiliation: Department of Genetics, Institute for Quantitative Biomedical Sciences, Geisel School of Medicine, Dartmouth College, Hanover, New Hampshire 03755, USA.
authors.forename: Ting
authors.initials: T
authors.lastname: Hu
authors.affiliation: Department of Genetics, Institute for Quantitative Biomedical Sciences, Geisel School of Medicine, Dartmouth College, Hanover, New Hampshire 03755, USA.
authors.forename: Peter C
authors.initials: PC
authors.lastname: Andrews
authors.affiliation: Department of Genetics, Institute for Quantitative Biomedical Sciences, Geisel School of Medicine, Dartmouth College, Hanover, New Hampshire 03755, USA.
authors.forename: Casey S
authors.initials: CS
authors.lastname: Greene
authors.affiliation: Department of Radiology and Imaging Sciences, Center for Neuroimaging and Indiana Alzheimer's Disease Center, Indiana University School of Medicine, Indianapolis, IN 46202, USA.
authors.forename: Li
authors.initials: L
authors.lastname: Shen
authors.affiliation: Department of Radiology and Imaging Sciences, Center for Neuroimaging and Indiana Alzheimer's Disease Center, Indiana University School of Medicine, Indianapolis, IN 46202, USA.
authors.forename: Andrew J
authors.initials: AJ
authors.lastname: Saykin
authors.affiliation: Department of Genetics, Institute for Quantitative Biomedical Sciences, Geisel School of Medicine, Dartmouth College, Hanover, New Hampshire 03755, USA.
authors.forename: Jason H
authors.initials: JH
authors.lastname: Moore