D A Hume

Summary

Affiliation: University of Edinburgh
Country: UK

Publications

  1. pmc Design and development of exome capture sequencing for the domestic pig (Sus scrofa)
    Christelle Robert
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Edinburgh EH25 9RG, UK
    BMC Genomics 15:550. 2014
  2. pmc An expression atlas of human primary cells: inference of gene function from coexpression networks
    Neil A Mabbott
    The Roslin Institute and Royal Dick School of Veterinary Studies, The University of Edinburgh, Easter Bush, Midlothian, Edinburgh EH25 9RG, UK
    BMC Genomics 14:632. 2013
  3. pmc A gene expression atlas of the domestic pig
    Tom C Freeman
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, EH25 9PS, UK
    BMC Biol 10:90. 2012
  4. pmc CSF1R mutations in hereditary diffuse leukoencephalopathy with spheroids are loss of function
    Clare Pridans
    1 The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian EH25 9RG, Scotland, UK 2
    Sci Rep 3:3013. 2013
  5. pmc The function of the conserved regulatory element within the second intron of the mammalian Csf1r locus
    Kristin A Sauter
    Developmental Biology, The Roslin Institute, Royal Dick School of Veterinary Studies, University of Edinburgh, Roslin, United Kingdom
    PLoS ONE 8:e54935. 2013
  6. pmc The impact of breed and tissue compartment on the response of pig macrophages to lipopolysaccharide
    Ronan Kapetanovic
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian, Edinburgh EH25 9RG, United Kingdom
    BMC Genomics 14:581. 2013
  7. pmc Cloning and expression of feline colony stimulating factor receptor (CSF-1R) and analysis of the species specificity of stimulation by colony stimulating factor-1 (CSF-1) and interleukin-34 (IL-34)
    Deborah J Gow
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian EH25 9RG Scotland, UK
    Cytokine 61:630-8. 2013
  8. pmc Cloning and expression of porcine Colony Stimulating Factor-1 (CSF-1) and Colony Stimulating Factor-1 Receptor (CSF-1R) and analysis of the species specificity of stimulation by CSF-1 and Interleukin 34
    Deborah J Gow
    The Roslin Institute, Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian EH25 9RG, Scotland, UK
    Cytokine 60:793-805. 2012
  9. pmc Structural and functional annotation of the porcine immunome
    Harry D Dawson
    USDA ARS, Beltsville Human Nutrition Research Center, Diet, Genomics, Immunology Laboratory, Beltsville, MD 20705, USA
    BMC Genomics 14:332. 2013
  10. pmc Plenary perspective: the complexity of constitutive and inducible gene expression in mononuclear phagocytes
    David A Hume
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Scotland, United Kingdom
    J Leukoc Biol 92:433-44. 2012

Collaborators

  • Constanze Bonifer
  • Danielle Gunn-Moore
  • Tom C Freeman
  • Sobia Raza
  • Kim M Summers
  • Kerry E Simpson
  • Ronan Kapetanovic
  • Clare Pridans
  • Deborah J Gow
  • David P Sester
  • Alan L Archibald
  • Kristin A Sauter
  • Lynsey Fairbairn
  • Christelle Robert
  • Harry D Dawson
  • Christopher K Tuggle
  • Neil A Mabbott
  • Dario Beraldi
  • Valerie Garceau
  • Yoshihide Hayashizaki
  • Hideya Kawaji
  • Harukazu Suzuki
  • Katharine M Irvine
  • Jessica C Mar
  • Karen Troup
  • Frances Turner
  • Alan Mileham
  • Pablo Fuentes-Utrilla
  • Nader Deeb
  • Richard Talbot
  • Julia Loecherbach
  • Mick Watson
  • Holger Kissel
  • Ting Hua Huang
  • Elisabetta Giuffra
  • Daniel Berman
  • Daisuke Toki
  • Charles Steward
  • Hiroki Shinkai
  • Michael P Murtaugh
  • Hiromi Tagoh
  • Jane E Loveland
  • Geraldine Pascal
  • Jie Zhang
  • Yongming Sang
  • Hirohide Uenishi
  • Takeya Morozumi
  • Eric Fritz
  • Laurens Wilming
  • Richard M Ingram
  • Alison Downing
  • Catherine Snow
  • Clara Amid
  • Matthew Astley
  • Mark Thomas
  • Katherine M Mann
  • J Kenneth Baillie
  • Adam G Gow
  • David Lloyd
  • Matthew Hardy
  • Joan K Lunney
  • Ranjit Kataria
  • Toby Hunt
  • M Amine Bouhlel
  • Julie O'Neal
  • Shu Hong Zhao
  • Sara Botti
  • Bertrand Bed'hom
  • Celine Chen
  • Megan Bystrom
  • Zhiliang Hu
  • James M Reecy
  • James G R Gilbert
  • Denise Carvalho-Silva
  • John C Schwartz
  • Frank Blecha
  • Mike Kay
  • Tahar Ait-Ali
  • Kristin Baer
  • Anna Anselmo
  • Helen Brown
  • Bouabid Badaoui
  • Jennifer L Harrow
  • Claire Rogel-Gaillard
  • Ryan Pei Yen Cheng
  • Thomas L Wilson
  • John A Shelly
  • Greg J Fici
  • Yasumasa Kimura
  • John Quackenbush

Detail Information

Publications18

  1. pmc Design and development of exome capture sequencing for the domestic pig (Sus scrofa)
    Christelle Robert
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Edinburgh EH25 9RG, UK
    BMC Genomics 15:550. 2014
    ..Exome sequencing has accelerated identification of protein-coding variants underlying phenotypic traits in human and mouse. We aimed to develop and validate a similar resource for the pig...
  2. pmc An expression atlas of human primary cells: inference of gene function from coexpression networks
    Neil A Mabbott
    The Roslin Institute and Royal Dick School of Veterinary Studies, The University of Edinburgh, Easter Bush, Midlothian, Edinburgh EH25 9RG, UK
    BMC Genomics 14:632. 2013
    ..Here we have combined a large number of publically available microarray datasets derived from human primary cells and analysed large correlation graphs of these data...
  3. pmc A gene expression atlas of the domestic pig
    Tom C Freeman
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, EH25 9PS, UK
    BMC Biol 10:90. 2012
    ..The new array was used to generate a genome-wide expression atlas of pig tissues derived from 62 tissue/cell types. These data were subjected to network correlation analysis and clustering...
  4. pmc CSF1R mutations in hereditary diffuse leukoencephalopathy with spheroids are loss of function
    Clare Pridans
    1 The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian EH25 9RG, Scotland, UK 2
    Sci Rep 3:3013. 2013
    ..Since Csf1r signaling requires receptor dimerization initiated by CSF1 binding, the data suggest a mechanism for phenotypic dominance of the mutant allele in HDLS...
  5. pmc The function of the conserved regulatory element within the second intron of the mammalian Csf1r locus
    Kristin A Sauter
    Developmental Biology, The Roslin Institute, Royal Dick School of Veterinary Studies, University of Edinburgh, Roslin, United Kingdom
    PLoS ONE 8:e54935. 2013
    ..Mutation of transcription initiation sites within FIRE also reduced transcription. These results demonstrate that FIRE is an orientation-specific transcribed enhancer element...
  6. pmc The impact of breed and tissue compartment on the response of pig macrophages to lipopolysaccharide
    Ronan Kapetanovic
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian, Edinburgh EH25 9RG, United Kingdom
    BMC Genomics 14:581. 2013
    ..Pig breeds have been reported to differ in their resistance to infectious disease. In this study we examine whether there are corresponding differences in gene expression in innate immune cells..
  7. pmc Cloning and expression of feline colony stimulating factor receptor (CSF-1R) and analysis of the species specificity of stimulation by colony stimulating factor-1 (CSF-1) and interleukin-34 (IL-34)
    Deborah J Gow
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian EH25 9RG Scotland, UK
    Cytokine 61:630-8. 2013
    ..These results set the scene for therapeutic use of CSF-1 and IL-34 in cats...
  8. pmc Cloning and expression of porcine Colony Stimulating Factor-1 (CSF-1) and Colony Stimulating Factor-1 Receptor (CSF-1R) and analysis of the species specificity of stimulation by CSF-1 and Interleukin 34
    Deborah J Gow
    The Roslin Institute, Royal Dick School of Veterinary Studies, University of Edinburgh, Easter Bush, Midlothian EH25 9RG, Scotland, UK
    Cytokine 60:793-805. 2012
    ..The pig CSF-1R was equally responsive to both mouse and human IL-34. Based upon the published crystal structures of CSF-1/CSF-1R and IL34/CSF-1R complexes, we discuss the molecular basis for the species specificity...
  9. pmc Structural and functional annotation of the porcine immunome
    Harry D Dawson
    USDA ARS, Beltsville Human Nutrition Research Center, Diet, Genomics, Immunology Laboratory, Beltsville, MD 20705, USA
    BMC Genomics 14:332. 2013
    ..The completion of the pig genome provides the opportunity to annotate the pig immunome, and compare and contrast pig and human immune systems...
  10. pmc Plenary perspective: the complexity of constitutive and inducible gene expression in mononuclear phagocytes
    David A Hume
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Scotland, United Kingdom
    J Leukoc Biol 92:433-44. 2012
    ..The data and publication deluge related to macrophage biology require the development of new analytical tools and ways of presenting information in an accessible form...
  11. ncbi Therapeutic applications of macrophage colony-stimulating factor-1 (CSF-1) and antagonists of CSF-1 receptor (CSF-1R) signaling
    David A Hume
    Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Edinburgh, United Kingdom
    Blood 119:1810-20. 2012
    ..As a treatment, CSF-1 has therapeutic potential in tissue repair. Conversely, inhibition of CSF-1R is unlikely to be effective in inflammatory disease but may have utility in cancer...
  12. pmc The FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation
    Hideya Kawaji
    RIKEN Omics Science Center, RIKEN Yokohama Institute, 1 7 22 Suehiro cho Tsurumi ku Yokohama, Kanagawa, 230 0045 Japan
    Genome Biol 10:R40. 2009
    ..In addition, data regarding chromatin status derived from ChIP-chip to elucidate the transcriptional regulatory interactions are included. Here we present these data to the research community as an integrated web resource...
  13. pmc Data-driven normalization strategies for high-throughput quantitative RT-PCR
    Jessica C Mar
    Department of Biostatistics, Harvard School of Public Health, 677 Huntington Avenue, Boston, MA 02115, USA
    BMC Bioinformatics 10:110. 2009
    ..The use of appropriate normalization algorithms for qPCR-based data is therefore a highly important aspect of the data preprocessing pipeline...
  14. ncbi Applications of myeloid-specific promoters in transgenic mice support in vivo imaging and functional genomics but do not support the concept of distinct macrophage and dendritic cell lineages or roles in immunity
    David A Hume
    The Roslin Institute, University of Edinburgh, Roslin, Midlothian EH25 9PS, UK
    J Leukoc Biol 89:525-38. 2011
    ..Nevertheless, they have proved valuable in cell isolation, functional genomics, and live imaging of myeloid cell behavior in many different pathologies...
  15. ncbi Functional clustering and lineage markers: insights into cellular differentiation and gene function from large-scale microarray studies of purified primary cell populations
    David A Hume
    The Roslin Institute, Roslin Biocentre, Roslin, Midlothian, UK
    Genomics 95:328-38. 2010
    ..We discuss the limitations placed upon such data by the presence of alternative promoters with distinct tissue specificity within many protein-coding genes...
  16. ncbi Differentiation and heterogeneity in the mononuclear phagocyte system
    D A Hume
    The Roslin Institute and Royal Dick School of Veterinary Studies, Roslin Biocentre, University of Edinburgh, Roslin, Scotland, UK
    Mucosal Immunol 1:432-41. 2008
    ..Those features clearly include antigen-presenting dendritic cells within the MPS and argue against any basis for separating them from macrophages...
  17. ncbi Macrophages as APC and the dendritic cell myth
    David A Hume
    The Roslin Institute and Royal Dick School of Veterinary Studies, University of Edinburgh, Scotland, United Kingdom
    J Immunol 181:5829-35. 2008
    ....
  18. ncbi The mononuclear phagocyte system of the pig as a model for understanding human innate immunity and disease
    Lynsey Fairbairn
    The Roslin Institute and Royal Dick School of Veterinary Medicine, University of Edinburgh, Roslin Biocentre, Scotland, United Kingdom
    J Leukoc Biol 89:855-71. 2011
    ....