Dawn Field

Summary

Affiliation: Centre for Ecology and Hydrology
Country: UK

Publications

  1. ncbi request reprint Laying the foundation for a Genomic Rosetta Stone: creating information hubs through the use of consensus identifiers
    Bart Van Brabant
    Laboratory of Microbiology, Ghent University, Ghent, Belgium
    OMICS 12:123-7. 2008
  2. pmc The Genomic Standards Consortium
    Dawn Field
    Centre for Ecology and Hydrology, Maclean Building, Crowmarsh Gifford, Wallingford, Oxfordshire, United Kingdom
    PLoS Biol 9:e1001088. 2011
  3. pmc The M5nr: a novel non-redundant database containing protein sequences and annotations from multiple sources and associated tools
    Andreas Wilke
    Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, IL 60439, USA
    BMC Bioinformatics 13:141. 2012
  4. pmc A call for an international network of genomic observatories (GOs)
    Neil Davies
    Biodiversity Institute, Department of Zoology, University of Oxford, The Tinbergen Building, South Parks Road, Oxford, OX1 3PS, UK
    Gigascience 1:5. 2012
  5. pmc Predicted Relative Metabolomic Turnover (PRMT): determining metabolic turnover from a coastal marine metagenomic dataset
    Peter E Larsen
    Argonne National Laboratory, 9700, S, Cass Ave, Argonne, Illinois, USA
    Microb Inform Exp 1:4. 2011
  6. ncbi request reprint How do we compare hundreds of bacterial genomes?
    Dawn Field
    Oxford Centre for Ecology and Hydrology, Oxford OX1 3SR, UK
    Curr Opin Microbiol 9:499-504. 2006
  7. ncbi request reprint The positive role of the ecological community in the genomic revolution
    Dawn Field
    Molecular Evolution and Bioinformatics Section, Oxford Centre for Ecology and Hydrology, Oxford, UK
    Microb Ecol 53:507-11. 2007
  8. ncbi request reprint Meeting report: the fifth Genomic Standards Consortium (GSC) workshop
    Dawn Field
    NERC Center for Ecology and Hydrology, Oxford, United Kingdom
    OMICS 12:109-13. 2008
  9. ncbi request reprint Meeting report: the fourth Genomic Standards Consortium (GSC) workshop
    Dawn Field
    NERC Centre for Ecology and Hydrology, Mansfield Road, Oxford, OX1 3SR United Kingdom
    OMICS 12:101-8. 2008
  10. doi request reprint Foreword to the special issue on the Fifth Genomic Standards consortium workshop
    Dawn Field
    NERC Centre for Ecology and Hydrology, Mansfield Rd, Oxford OX1 3SR, United Kingdom
    OMICS 12:99. 2008

Detail Information

Publications39

  1. ncbi request reprint Laying the foundation for a Genomic Rosetta Stone: creating information hubs through the use of consensus identifiers
    Bart Van Brabant
    Laboratory of Microbiology, Ghent University, Ghent, Belgium
    OMICS 12:123-7. 2008
    ....
  2. pmc The Genomic Standards Consortium
    Dawn Field
    Centre for Ecology and Hydrology, Maclean Building, Crowmarsh Gifford, Wallingford, Oxfordshire, United Kingdom
    PLoS Biol 9:e1001088. 2011
    ....
  3. pmc The M5nr: a novel non-redundant database containing protein sequences and annotations from multiple sources and associated tools
    Andreas Wilke
    Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, IL 60439, USA
    BMC Bioinformatics 13:141. 2012
    ..Sequence similarity search results encoded in an open, exchangeable format have the potential to limit the needs for computational reanalysis of these data sets. A prerequisite for sharing of similarity results is a common reference...
  4. pmc A call for an international network of genomic observatories (GOs)
    Neil Davies
    Biodiversity Institute, Department of Zoology, University of Oxford, The Tinbergen Building, South Parks Road, Oxford, OX1 3PS, UK
    Gigascience 1:5. 2012
    ..The foundational layer of biodiversity-genetic variation-would thus be mainstreamed into Earth Observation systems enabling predictive modelling of biodiversity dynamics and resultant impacts on ecosystem services...
  5. pmc Predicted Relative Metabolomic Turnover (PRMT): determining metabolic turnover from a coastal marine metagenomic dataset
    Peter E Larsen
    Argonne National Laboratory, 9700, S, Cass Ave, Argonne, Illinois, USA
    Microb Inform Exp 1:4. 2011
    ..abstract:..
  6. ncbi request reprint How do we compare hundreds of bacterial genomes?
    Dawn Field
    Oxford Centre for Ecology and Hydrology, Oxford OX1 3SR, UK
    Curr Opin Microbiol 9:499-504. 2006
    ..The benefits of large-scale comparative genomic analyses are driving the community to think about how to manage our public collections of genomes in novel ways...
  7. ncbi request reprint The positive role of the ecological community in the genomic revolution
    Dawn Field
    Molecular Evolution and Bioinformatics Section, Oxford Centre for Ecology and Hydrology, Oxford, UK
    Microb Ecol 53:507-11. 2007
    ..These integrative bioinformatics and data management initiatives underscore the increasingly important role ecologists have to play in the genomic (metagenomic) revolution...
  8. ncbi request reprint Meeting report: the fifth Genomic Standards Consortium (GSC) workshop
    Dawn Field
    NERC Center for Ecology and Hydrology, Oxford, United Kingdom
    OMICS 12:109-13. 2008
    ..Further information about the GSC and its range of activities can be found at http://gensc.org...
  9. ncbi request reprint Meeting report: the fourth Genomic Standards Consortium (GSC) workshop
    Dawn Field
    NERC Centre for Ecology and Hydrology, Mansfield Road, Oxford, OX1 3SR United Kingdom
    OMICS 12:101-8. 2008
    ..g., compliant with MIGS/MIMS), but also be extended to include a variety of data processing and calculations. Further information about the Genomic Standards Consortium and its range of activities can be found at http://gensc.org...
  10. doi request reprint Foreword to the special issue on the Fifth Genomic Standards consortium workshop
    Dawn Field
    NERC Centre for Ecology and Hydrology, Mansfield Rd, Oxford OX1 3SR, United Kingdom
    OMICS 12:99. 2008
  11. pmc The minimum information about a genome sequence (MIGS) specification
    Dawn Field
    Natural Environmental Research Council Centre for Ecology and Hydrology, Oxford OX1 3SR, UK
    Nat Biotechnol 26:541-7. 2008
    ..As part of its wider goals, the GSC also supports improving the 'transparency' of the information contained in existing genomic databases...
  12. ncbi request reprint Cataloguing our current genome collection
    Dawn Field
    Molecular Evolution and Bioinformatics Section, Oxford Centre for Ecology and Hydrology, Mansfield Road, Oxford UK OX1 3SR
    Microbiology 151:1016-9. 2005
  13. ncbi request reprint Databases and software for the comparison of prokaryotic genomes
    Dawn Field
    Oxford Centre for Ecology and Hydrology, Mansfield Road, Oxford OX1 3SR, UK
    Microbiology 151:2125-32. 2005
    ..This article reviews progress towards the development of computational tools and databases for organizing and extracting biological meaning from the comparison of large collections of genomes...
  14. pmc Bioinformatics and data management support for environmental genomics
    Dawn Field
    Environmental Genomics Thematic Programme Data Center, Oxford Centre for Ecology and Hydrology, Oxford, United Kingdom
    PLoS Biol 3:e297. 2005
  15. ncbi request reprint Open software for biologists: from famine to feast
    Dawn Field
    NERC Environmental Bioinformatics Centre, Oxford, UK
    Nat Biotechnol 24:801-3. 2006
    ..Developing and deploying specialized computing systems for specific research communities is achievable, cost effective and has wide-ranging benefits...
  16. ncbi request reprint Meeting report: eGenomics: Cataloguing our Complete Genome Collection II
    Dawn Field
    Molecular Evolution and Bioinformatics Section, Oxford Centre for Ecology and Hydrology, Oxford, United Kingdom
    OMICS 10:100-4. 2006
    ..The workshop proceedings and outcomes are set to help guide the development of the GSC's Minimal Information about a Genome Sequence (MIGS) specification...
  17. ncbi request reprint Handlebar: a flexible, web-based inventory manager for handling barcoded samples
    Tim Booth
    NERC Centre for Ecology and Hydrology, Oxford, UK
    Biotechniques 42:300, 302. 2007
  18. pmc Toward interoperable bioscience data
    Susanna Assunta Sansone
    Oxford e Research Centre, University of Oxford, Oxford, UK
    Nat Genet 44:121-6. 2012
    ..Here we describe the prerequisites for data commoning and present an established and growing ecosystem of solutions using the shared 'Investigation-Study-Assay' framework to support that vision...
  19. pmc Large-scale comparative genomic ranking of taxonomically restricted genes (TRGs) in bacterial and archaeal genomes
    Gareth A Wilson
    Centre for Ecology and Hydrology CEH Oxford, Oxford, United Kindgom
    PLoS ONE 2:e324. 2007
    ..This lack of homology confounds attempts to establish the likelihood that a hypothetical gene is expressed and, if so, to determine the putative function of the protein...
  20. ncbi request reprint EBI metagenomics--a new resource for the analysis and archiving of metagenomic data
    Sarah Hunter
    European Molecular Biology Laboratory, European Bioinformatics Institute EMBL EBI, Wellcome Trust Genome Campus, Hinxton, CB10 1SD, UK, Oxford e Research Centre, University of Oxford, 7 Keble Road, Oxford, OX1 3QG, UK and NERC Centre for Ecology and Hydrology, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford, OX10 8BB, UK
    Nucleic Acids Res 42:D600-6. 2014
    ....
  21. pmc High rates of recombination in otitis media isolates of non-typeable Haemophilus influenzae
    Alison J Cody
    Molecular Infectious Diseases Group, Department of Paediatrics, Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, UK
    Infect Genet Evol 3:57-66. 2003
    ..These findings provide a population based foundation for a better understanding of the role of NTHi LPS as a virulence factor and its potential as a candidate vaccine...
  22. ncbi request reprint The first RSBI (ISA-TAB) workshop: "can a simple format work for complex studies?"
    Susanna Assunta Sansone
    EMBL EBI The European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom
    OMICS 12:143-9. 2008
    ..This article is part of the special issue of OMICS on the activities of the Genomics Standards Consortium (GSC)...
  23. ncbi request reprint Using the genome to understand pathogenicity
    Dawn Field
    Oxford Centre for Ecology an Hydrology, UK
    Methods Mol Biol 266:261-87. 2004
    ....
  24. ncbi request reprint Concept of sample in OMICS technology
    Norman Morrison
    School of Computer Science, University of Manchester, United Kingdom
    OMICS 10:127-37. 2006
    ....
  25. ncbi request reprint Annotation of environmental OMICS data: application to the transcriptomics domain
    Norman Morrison
    School of Computer Science, University of Manchester, Manchester, United Kingdom
    OMICS 10:172-8. 2006
    ..Finally, we make an open call to the community for participation in the Env Community and its future activities...
  26. doi request reprint Habitat-Lite: a GSC case study based on free text terms for environmental metadata
    Lynette Hirschman
    Information Technology Center, The MITRE Corporation, Bedford, Massachusetts 01730, USA
    OMICS 12:129-36. 2008
    ..We invite the community's feedback on its further development to provide a minimum list of terms to capture high-level habitat information and to provide classification bins needed for future studies...
  27. pmc PlantTribes: a gene and gene family resource for comparative genomics in plants
    P Kerr Wall
    Department of Biology, Institute of Molecular Evolutionary Genetics, and The Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, PA 16802, USA
    Nucleic Acids Res 36:D970-6. 2008
    ..All data and analyses are accessible through a flexible interface allowing users to explore the classification, to place query sequences within the classification, and to download results for further study...
  28. doi request reprint Defining linkages between the GSC and NSF's LTER program: how the Ecological Metadata Language (EML) relates to GCDML and other outcomes
    Inigo San Gil
    Department of Biology, LTER Network Office, University of New Mexico, Albuquerque, New Mexico 87131, USA
    OMICS 12:151-6. 2008
    ..All these action items have been accepted by the LTER contingent, and further collaboration between the GSC and LTER is expected...
  29. pmc Toward an online repository of Standard Operating Procedures (SOPs) for (meta)genomic annotation
    Samuel V Angiuoli
    Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, Maryland 21201, USA
    OMICS 12:137-41. 2008
    ..In addition, there is no central repository to store and disseminate procedures and protocols for genome annotation. We highlight the importance of SOPs for genome annotation and endorse an online repository of SOPs...
  30. ncbi request reprint A standard MIGS/MIMS compliant XML Schema: toward the development of the Genomic Contextual Data Markup Language (GCDML)
    Renzo Kottmann
    Microbial Genomics Group, Max Planck Institute for Marine Microbiology and Jacobs University Bremen, 28359 Bremen, Germany
    OMICS 12:115-21. 2008
    ..GCDML is freely available, and can be downloaded, along with documentation, from the GSC Web site (http://gensc.org)...
  31. pmc Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project
    Chris F Taylor
    European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK
    Nat Biotechnol 26:889-96. 2008
  32. doi request reprint Working together to put molecules on the map
    Dawn Field
    Nature 453:978. 2008
  33. ncbi request reprint Proteomics and Beyond: a report on the 3rd Annual Spring Workshop of the HUPO-PSI 21-23 April 2006, San Francisco, CA, USA
    Sandra Orchard
    EMBL Outstation European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, UK
    Proteomics 6:4439-43. 2006
    ....
  34. ncbi request reprint Public repositories need serious funding
    Bela Tiwari
    Nature 439:912. 2006
  35. ncbi request reprint Toward a standards-compliant genomic and metagenomic publication record
    George M Garrity
    Microbiology and Molecular Genetics, Michigan State University, East Lansing, Michigan, USA
    OMICS 12:157-60. 2008
    ....
  36. ncbi request reprint The plasmid genome database
    Lars Mølbak
    Danish Veterinary Institute, Bulowsvej 27, DK 1790 Copenhagen V, Denmark
    Microbiology 149:3043-5. 2003
  37. pmc Development of FuGO: an ontology for functional genomics investigations
    Patricia L Whetzel
    Center for Bioinformatics and Department of Genetics, University of Pennsylvania School of Medicine, Philadelphia, Pennsylvania 19104, USA
    OMICS 10:199-204. 2006
    ....