Daniel Bottomly

Summary

Affiliation: Oregon Health and Science University
Country: USA

Publications

  1. ncbi HitWalker: variant prioritization for personalized functional cancer genomics
    Daniel Bottomly
    Knight Cancer Institute, Oregon Health and Science University, Portland, OR 97239, USA
    Bioinformatics 29:509-10. 2013
  2. ncbi Evaluating gene expression in C57BL/6J and DBA/2J mouse striatum using RNA-Seq and microarrays
    Daniel Bottomly
    Oregon Clinical and Translational Research Institute, Oregon Health and Science University, Portland, Oregon, United States of America
    PLoS ONE 6:e17820. 2011
  3. ncbi High throughput sequencing in mice: a platform comparison identifies a preponderance of cryptic SNPs
    Nicole A R Walter
    Research and Development Service, Portland VA Medical Center, Portland, OR, USA
    BMC Genomics 10:379. 2009
  4. ncbi Utilizing RNA-Seq data for de novo coexpression network inference
    Ovidiu D Iancu
    Department of Behavioral Neuroscience, Oregon Health and Science University, Portland, OR 97239 3098, USA
    Bioinformatics 28:1592-7. 2012
  5. ncbi Oncogenic CSF3R mutations in chronic neutrophilic leukemia and atypical CML
    Julia E Maxson
    Division of Hematology and Medical Oncology, Knight Cancer Institute, Oregon Health and Science University, Portland, OR 97239, USA
    N Engl J Med 368:1781-90. 2013
  6. ncbi Identification of {beta}-catenin binding regions in colon cancer cells using ChIP-Seq
    Daniel Bottomly
    Oregon Clinical and Translational Research Institute, Oregon Health and Science University, Portland, OR, USA
    Nucleic Acids Res 38:5735-45. 2010

Collaborators

Detail Information

Publications6

  1. ncbi HitWalker: variant prioritization for personalized functional cancer genomics
    Daniel Bottomly
    Knight Cancer Institute, Oregon Health and Science University, Portland, OR 97239, USA
    Bioinformatics 29:509-10. 2013
    ..Availability and implementation: The program, documentation and example data are available as an R package from www.biodevlab.org/HitWalker.html...
  2. ncbi Evaluating gene expression in C57BL/6J and DBA/2J mouse striatum using RNA-Seq and microarrays
    Daniel Bottomly
    Oregon Clinical and Translational Research Institute, Oregon Health and Science University, Portland, Oregon, United States of America
    PLoS ONE 6:e17820. 2011
    ....
  3. ncbi High throughput sequencing in mice: a platform comparison identifies a preponderance of cryptic SNPs
    Nicole A R Walter
    Research and Development Service, Portland VA Medical Center, Portland, OR, USA
    BMC Genomics 10:379. 2009
    ..With the advent of next-generation, high-throughput sequencing, we are now in a position to determine to what extent polymorphisms are currently cryptic in such models and their impact on downstream analyses...
  4. ncbi Utilizing RNA-Seq data for de novo coexpression network inference
    Ovidiu D Iancu
    Department of Behavioral Neuroscience, Oregon Health and Science University, Portland, OR 97239 3098, USA
    Bioinformatics 28:1592-7. 2012
    ..For transcripts present across platforms, network structure appeared largely preserved. From this study, we present the first RNA-Seq data de novo network inference...
  5. ncbi Oncogenic CSF3R mutations in chronic neutrophilic leukemia and atypical CML
    Julia E Maxson
    Division of Hematology and Medical Oncology, Knight Cancer Institute, Oregon Health and Science University, Portland, OR 97239, USA
    N Engl J Med 368:1781-90. 2013
    ....
  6. ncbi Identification of {beta}-catenin binding regions in colon cancer cells using ChIP-Seq
    Daniel Bottomly
    Oregon Clinical and Translational Research Institute, Oregon Health and Science University, Portland, OR, USA
    Nucleic Acids Res 38:5735-45. 2010
    ..Our work provides evidence that Wnt/β-catenin and mitogen signaling pathways intersect directly to regulate a defined set of target genes...