Paul P Gardner

Summary

Affiliation: Wellcome Trust Genome Campus
Country: UK

Publications

  1. pmc Rfam: updates to the RNA families database
    Paul P Gardner
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, CB10 1SA, UK
    Nucleic Acids Res 37:D136-40. 2009
  2. ncbi request reprint The use of covariance models to annotate RNAs in whole genomes
    Paul P Gardner
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
    Brief Funct Genomic Proteomic 8:444-50. 2009
  3. pmc SnoPatrol: how many snoRNA genes are there?
    Paul P Gardner
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB101SA, UK
    J Biol 9:4. 2010
  4. pmc Rfam: Wikipedia, clans and the "decimal" release
    Paul P Gardner
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA0, USA
    Nucleic Acids Res 39:D141-5. 2011
  5. pmc RNIE: genome-wide prediction of bacterial intrinsic terminators
    Paul P Gardner
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA0, UK
    Nucleic Acids Res 39:5845-52. 2011
  6. pmc Rfam 11.0: 10 years of RNA families
    Sarah W Burge
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA, UK
    Nucleic Acids Res 41:D226-32. 2013
  7. pmc A comparison of dense transposon insertion libraries in the Salmonella serovars Typhi and Typhimurium
    Lars Barquist
    Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    Nucleic Acids Res 41:4549-64. 2013
  8. pmc Making your database available through Wikipedia: the pros and cons
    Robert D Finn
    HHMI Janelia Farm Research Campus, 19700 Helix Drive, Ashburn, VA, USA
    Nucleic Acids Res 40:D9-12. 2012
  9. pmc A strand-specific RNA-Seq analysis of the transcriptome of the typhoid bacillus Salmonella typhi
    Timothy T Perkins
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    PLoS Genet 5:e1000569. 2009

Collaborators

Detail Information

Publications9

  1. pmc Rfam: updates to the RNA families database
    Paul P Gardner
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, CB10 1SA, UK
    Nucleic Acids Res 37:D136-40. 2009
    ..Recent improvements to the website, methodologies and data used by Rfam are discussed. Rfam is freely available on the Web at http://rfam.sanger.ac.uk/and http://rfam.janelia.org/...
  2. ncbi request reprint The use of covariance models to annotate RNAs in whole genomes
    Paul P Gardner
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
    Brief Funct Genomic Proteomic 8:444-50. 2009
    ..Some recent innovations for improving the speed and accuracy of covariance models is discussed...
  3. pmc SnoPatrol: how many snoRNA genes are there?
    Paul P Gardner
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB101SA, UK
    J Biol 9:4. 2010
    ..Small nucleolar RNAs (snoRNAs) are among the most evolutionarily ancient classes of small RNA. Two experimental screens published in BMC Genomics expand the eukaryotic snoRNA catalog, but many more snoRNAs remain to be found...
  4. pmc Rfam: Wikipedia, clans and the "decimal" release
    Paul P Gardner
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA0, USA
    Nucleic Acids Res 39:D141-5. 2011
    ..We discuss the addition of groupings of related RNA families into clans and new developments to the website. Rfam is available on the Web at http://rfam.sanger.ac.uk...
  5. pmc RNIE: genome-wide prediction of bacterial intrinsic terminators
    Paul P Gardner
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA0, UK
    Nucleic Acids Res 39:5845-52. 2011
    ..tuberculosis genic elements. The software, predictions and alignments described below are available from http://github.com/ppgardne/RNIE...
  6. pmc Rfam 11.0: 10 years of RNA families
    Sarah W Burge
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA, UK
    Nucleic Acids Res 41:D226-32. 2013
    ..0, including the introduction of genome-based alignments for large families, the introduction of the Rfam Biomart as well as other user interface improvements. Rfam is available under the Creative Commons Zero license...
  7. pmc A comparison of dense transposon insertion libraries in the Salmonella serovars Typhi and Typhimurium
    Lars Barquist
    Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    Nucleic Acids Res 41:4549-64. 2013
    ..We are able to assign probable functions to a number of cis-regulatory ncRNA elements, as well as to infer likely differences in trans-acting ncRNA regulatory networks...
  8. pmc Making your database available through Wikipedia: the pros and cons
    Robert D Finn
    HHMI Janelia Farm Research Campus, 19700 Helix Drive, Ashburn, VA, USA
    Nucleic Acids Res 40:D9-12. 2012
    ..Finally, we raise the question about the future role of dedicated database biocurators in context of the thousands of crowdsourced, community annotations that are now being stored in wikis...
  9. pmc A strand-specific RNA-Seq analysis of the transcriptome of the typhoid bacillus Salmonella typhi
    Timothy T Perkins
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    PLoS Genet 5:e1000569. 2009
    ..Typhi OmpR regulon and identify novel OmpR regulated transcripts. Thus, ssRNA-seq provides a novel and powerful approach to the characterization of the bacterial transcriptome...