Casey W Dunn

Summary

Affiliation: Brown University
Country: USA

Publications

  1. pmc Agalma: an automated phylogenomics workflow
    Casey W Dunn
    Department of Ecology and Evolutionary Biology, Brown University, Providence, Rhode Island, USA
    BMC Bioinformatics 14:330. 2013
  2. pmc Characterization of differential transcript abundance through time during Nematostella vectensis development
    Rebecca Rae Helm
    Ecology and Evolutionary Biology, Brown University, 80 Waterman Street, Providence, RI 02912, USA
    BMC Genomics 14:266. 2013
  3. doi request reprint Broad phylogenomic sampling improves resolution of the animal tree of life
    Casey W Dunn
    Kewalo Marine Laboratory, PBRC, University of Hawaii, 41 Ahui Street, Honolulu, Hawaii 96813, USA
    Nature 452:745-9. 2008
  4. doi request reprint Evolution: out of the ocean
    Casey W Dunn
    Department of Ecology and Evolutionary Biology, Brown University, Providence, RI 02912, USA
    Curr Biol 23:R241-3. 2013
  5. pmc Assessing the root of bilaterian animals with scalable phylogenomic methods
    Andreas Hejnol
    Kewalo Marine Laboratory, University of Hawaii, 41 Ahui Street, Honolulu, HI 96813, USA
    Proc Biol Sci 276:4261-70. 2009
  6. pmc Molecular evidence for deep evolutionary roots of bilaterality in animal development
    David Q Matus
    Kewalo Marine Laboratory, Pacific Bioscience Research Center, University of Hawaii, 41 Ahui Street, Honolulu, HI 96813, USA
    Proc Natl Acad Sci U S A 103:11195-200. 2006
  7. doi request reprint Resolving the evolutionary relationships of molluscs with phylogenomic tools
    Stephen A Smith
    Department of Ecology and Evolutionary Biology, Brown University, Providence, Rhode Island 02912, USA
    Nature 480:364-7. 2011
  8. pmc Differential gene expression in the siphonophore Nanomia bijuga (Cnidaria) assessed with multiple next-generation sequencing workflows
    Stefan Siebert
    Department of Ecology and Evolutionary Biology, Brown University, Providence, Rhode Island, United States of America
    PLoS ONE 6:e22953. 2011
  9. ncbi request reprint The evolution of colony-level development in the Siphonophora (Cnidaria:Hydrozoa)
    Casey W Dunn
    Kewalo Marine Laboratory, University of Hawaii, 41 Ahui Street, Honolulu, HI 96813, USA
    Dev Genes Evol 216:743-54. 2006
  10. ncbi request reprint Molecular phylogenetics of the siphonophora (Cnidaria), with implications for the evolution of functional specialization
    Casey W Dunn
    Department of Ecology and Evolutionary Biology, Yale University, New Haven, Connecticut, USA
    Syst Biol 54:916-35. 2005

Detail Information

Publications16

  1. pmc Agalma: an automated phylogenomics workflow
    Casey W Dunn
    Department of Ecology and Evolutionary Biology, Brown University, Providence, Rhode Island, USA
    BMC Bioinformatics 14:330. 2013
    ..In addition, methodological improvements made in the context of one study often cannot be easily applied and evaluated in the context of other studies...
  2. pmc Characterization of differential transcript abundance through time during Nematostella vectensis development
    Rebecca Rae Helm
    Ecology and Evolutionary Biology, Brown University, 80 Waterman Street, Providence, RI 02912, USA
    BMC Genomics 14:266. 2013
    ..We provide an overview of changes in the transcriptome through development, and examine the maternal to zygotic transition, which has been difficult to investigate with other tools...
  3. doi request reprint Broad phylogenomic sampling improves resolution of the animal tree of life
    Casey W Dunn
    Kewalo Marine Laboratory, PBRC, University of Hawaii, 41 Ahui Street, Honolulu, Hawaii 96813, USA
    Nature 452:745-9. 2008
    ..Many relationships between a stable subset of taxa find strong support, and a diminishing number of lineages remain recalcitrant to placement on the tree...
  4. doi request reprint Evolution: out of the ocean
    Casey W Dunn
    Department of Ecology and Evolutionary Biology, Brown University, Providence, RI 02912, USA
    Curr Biol 23:R241-3. 2013
    ..This has important implications for our understanding of the historical interactions of terrestrial organisms with each other and their physical environments...
  5. pmc Assessing the root of bilaterian animals with scalable phylogenomic methods
    Andreas Hejnol
    Kewalo Marine Laboratory, University of Hawaii, 41 Ahui Street, Honolulu, HI 96813, USA
    Proc Biol Sci 276:4261-70. 2009
    ..The work highlights the implications that these arrangements have for metazoan evolution and permits a clearer picture of ancestral morphologies and life histories in the deep past...
  6. pmc Molecular evidence for deep evolutionary roots of bilaterality in animal development
    David Q Matus
    Kewalo Marine Laboratory, Pacific Bioscience Research Center, University of Hawaii, 41 Ahui Street, Honolulu, HI 96813, USA
    Proc Natl Acad Sci U S A 103:11195-200. 2006
    ..vectensis could possess antecedents of the organization of the bilaterian central nervous system...
  7. doi request reprint Resolving the evolutionary relationships of molluscs with phylogenomic tools
    Stephen A Smith
    Department of Ecology and Evolutionary Biology, Brown University, Providence, Rhode Island 02912, USA
    Nature 480:364-7. 2011
    ..This well-resolved tree will constitute a framework for further studies of mollusc evolution, development and anatomy...
  8. pmc Differential gene expression in the siphonophore Nanomia bijuga (Cnidaria) assessed with multiple next-generation sequencing workflows
    Stefan Siebert
    Department of Ecology and Evolutionary Biology, Brown University, Providence, Rhode Island, United States of America
    PLoS ONE 6:e22953. 2011
    ..Third, the impacts of partial reference sequences on the ability to detect DE can be mitigated through workflow choice and deeper reference sequencing...
  9. ncbi request reprint The evolution of colony-level development in the Siphonophora (Cnidaria:Hydrozoa)
    Casey W Dunn
    Kewalo Marine Laboratory, University of Hawaii, 41 Ahui Street, Honolulu, HI 96813, USA
    Dev Genes Evol 216:743-54. 2006
    ..This descriptive work will enable future mechanistic and molecular studies of colony-level development in the siphonophores...
  10. ncbi request reprint Molecular phylogenetics of the siphonophora (Cnidaria), with implications for the evolution of functional specialization
    Casey W Dunn
    Department of Ecology and Evolutionary Biology, Yale University, New Haven, Connecticut, USA
    Syst Biol 54:916-35. 2005
    ..Cnidaria; colonial animals; deep sea; division of labor; functional specialization; Hydrozoa; phylogenetics; Siphonophores.]...
  11. pmc Phylogenetic analysis of gene expression
    Casey W Dunn
    Department of Ecology and Evolutionary Biology, Brown University, Providence, RI, USA Department of Biostatistics and Center for Statistical Sciences, Brown University, Providence, RI 02903, USA
    Integr Comp Biol 53:847-56. 2013
    ..These topics are relevant to high-throughput phenotypic data well beyond gene expression. ..
  12. ncbi request reprint Toward a statistically explicit understanding of de novo sequence assembly
    Mark Howison
    Center for Computation and Visualization and Department of Ecology and Evolutionary Biology, Brown University, Providence, RI 02912, USA
    Bioinformatics 29:2959-63. 2013
    ..Those assemblers that do report uncertainty take different approaches to describing multiple assembly hypotheses and the support for each...
  13. doi request reprint Phyutility: a phyloinformatics tool for trees, alignments and molecular data
    Stephen A Smith
    Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT 06520, USA
    Bioinformatics 24:715-6. 2008
    ..Its simple command-line interface allows for easy integration into scripted analyses, and is able to handle large datasets with an integrated database...
  14. pmc Bayesian genome assembly and assessment by markov chain monte carlo sampling
    Mark Howison
    Center for Computation and Visualization, Brown University, Providence, Rhode Island, United States of America
    PLoS ONE 9:e99497. 2014
    ..GABI is freely available under a GPL license from https://bitbucket.org/mhowison/gabi. ..
  15. ncbi request reprint Complex colony-level organization of the deep-sea siphonophore Bargmannia elongata (Cnidaria, Hydrozoa) is directionally asymmetric and arises by the subdivision of pro-buds
    Casey W Dunn
    Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT 06520, USA
    Dev Dyn 234:835-45. 2005
    ..This initial description of development in a deep-sea siphonophore provides an example of how precise colony-level organization can arise, and illustrates that the morphological complexity of cnidarians is greater than is often assumed...
  16. pmc Adaptive evolution of HoxA-11 and HoxA-13 at the origin of the uterus in mammals
    Vincent J Lynch
    Department of Ecology and Evolutionary Biology, Yale University, 165 Prospect Street, New Haven, CT 06551, USA
    Proc Biol Sci 271:2201-7. 2004
    ..These results support the idea that adaptive evolution of transcription factors can be an integral part in the evolution of novel structures...