Denis C Bauer

Summary

Affiliation: University of Queensland
Country: Australia

Publications

  1. ncbi Optimizing static thermodynamic models of transcriptional regulation
    Denis C Bauer
    Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD 4072, Australia
    Bioinformatics 25:1640-6. 2009
  2. ncbi Dual-functioning transcription factors in the developmental gene network of Drosophila melanogaster
    Denis C Bauer
    Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD 4072 Australia
    BMC Bioinformatics 11:366. 2010
  3. ncbi STREAM: Static Thermodynamic REgulAtory Model of transcription
    Denis C Bauer
    Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD 4072, Australia
    Bioinformatics 24:2544-5. 2008
  4. ncbi Assigning roles to DNA regulatory motifs using comparative genomics
    Fabian A Buske
    Institute for Molecular Bioscience, The University of Queensland, Brisbane QLD 4072, Australia
    Bioinformatics 26:860-6. 2010
  5. ncbi Sorting the nuclear proteome
    Denis C Bauer
    Queensland Brain Institute, School of Chemistry and Molecular Biosciences, Queensland Facility for Advanced Bioinformatics, The University of Queensland, St Lucia, Australia
    Bioinformatics 27:i7-14. 2011
  6. ncbi STAR: predicting recombination sites from amino acid sequence
    Denis C Bauer
    Institute for Molecular Bioscience, The University of Queensland, QLD 4072, Australia
    BMC Bioinformatics 7:437. 2006
  7. ncbi Studying the functional conservation of cis-regulatory modules and their transcriptional output
    Denis C Bauer
    Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD 4072 Australia
    BMC Bioinformatics 9:220. 2008

Detail Information

Publications7

  1. ncbi Optimizing static thermodynamic models of transcriptional regulation
    Denis C Bauer
    Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD 4072, Australia
    Bioinformatics 25:1640-6. 2009
    ..In particular, we see no advantage to using the more sophisticated 'LAM' cooling schedule. Overall, a good approximate solution is achievable in minutes using SA with a simple cooling schedule...
  2. ncbi Dual-functioning transcription factors in the developmental gene network of Drosophila melanogaster
    Denis C Bauer
    Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD 4072 Australia
    BMC Bioinformatics 11:366. 2010
    ..However, all of the models to date assume a transcription factor (TF) to have either activating or repressing function towards all the genes it is regulating...
  3. ncbi STREAM: Static Thermodynamic REgulAtory Model of transcription
    Denis C Bauer
    Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD 4072, Australia
    Bioinformatics 24:2544-5. 2008
    ..AVAILABILITY: The platform independent executable of stream, as well as a tutorial and the full documentation, are available at http://bioinformatics.org.au/stream/. stream requires Java version 5 or higher...
  4. ncbi Assigning roles to DNA regulatory motifs using comparative genomics
    Fabian A Buske
    Institute for Molecular Bioscience, The University of Queensland, Brisbane QLD 4072, Australia
    Bioinformatics 26:860-6. 2010
    ..Because GOMO uses a threshold-free form of gene set analysis, there are no free parameters to tune. Biologists can investigate the potential roles of DNA regulatory motifs of interest using GOMO via the web (http://meme.nbcr.net)...
  5. ncbi Sorting the nuclear proteome
    Denis C Bauer
    Queensland Brain Institute, School of Chemistry and Molecular Biosciences, Queensland Facility for Advanced Bioinformatics, The University of Queensland, St Lucia, Australia
    Bioinformatics 27:i7-14. 2011
    ..We create diagrams illustrating the outcomes of a Gene Ontology enrichment analysis. Associated with an extensive range of transcription factors, the analysis suggests that PML bodies coordinate regulatory immune responses...
  6. ncbi STAR: predicting recombination sites from amino acid sequence
    Denis C Bauer
    Institute for Molecular Bioscience, The University of Queensland, QLD 4072, Australia
    BMC Bioinformatics 7:437. 2006
    ..The prohibitive requirements for applying current tools led us to investigate machine learning to assist in finding useful recombination sites from amino acid sequence alone...
  7. ncbi Studying the functional conservation of cis-regulatory modules and their transcriptional output
    Denis C Bauer
    Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD 4072 Australia
    BMC Bioinformatics 9:220. 2008
    ....