Peter F Hallin

Summary

Affiliation: Center for Biological Sequence Analysis
Country: Denmark

Publications

  1. doi request reprint The genome BLASTatlas-a GeneWiz extension for visualization of whole-genome homology
    Peter F Hallin
    Center for Biological Sequence Analysis, Department of Systems Biology, The Technical University of Denmark, Lyngby, Denmark
    Mol Biosyst 4:363-71. 2008
  2. ncbi request reprint CBS Genome Atlas Database: a dynamic storage for bioinformatic results and sequence data
    Peter F Hallin
    Center for Biological Sequence Analysis CBS, BioCentrum DTU, Building 208, The Technical University of Denmark, DK 2800 Lyngby, Denmark
    Bioinformatics 20:3682-6. 2004
  3. ncbi request reprint Genome update: sigma factors in 240 bacterial genomes
    Kristoffer Kill
    Center for Biological Sequence Analysis, BioCentrum DTU, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 151:3147-50. 2005
  4. ncbi request reprint Genome update: correlation of bacterial genomic properties
    Peter F Hallin
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 150:3899-903. 2004
  5. ncbi request reprint Ten years of bacterial genome sequencing: comparative-genomics-based discoveries
    Tim T Binnewies
    Center for Biological Sequence Analysis, Technical University of Denmark, 2800, Lyngby, Denmark
    Funct Integr Genomics 6:165-85. 2006
  6. ncbi request reprint Genome update: prediction of secreted proteins in 225 bacterial proteomes
    Jannick D Bendtsen
    Center for Biological Sequence Analysis, BioCentrum DTU, The Technical University of Denmark, DK 2800 Kgs, Lyngby, Denmark
    Microbiology 151:1725-7. 2005
  7. ncbi request reprint Genome Update: Protein secretion systems in 225 bacterial genomes
    Tim T Binnewies
    Center for Biological Sequence Analysis, BioCentrum DTU, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 151:1013-6. 2005
  8. ncbi request reprint Genome update: base skews in 200+ bacterial chromosomes
    Peter F Hallin
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 151:633-7. 2005
  9. pmc Characterization of probiotic Escherichia coli isolates with a novel pan-genome microarray
    Hanni Willenbrock
    Center for Biological Sequence Analysis, Technical University of Denmark, 2800 Lyngby, Denmark
    Genome Biol 8:R267. 2007
  10. pmc Genomic characterization of Campylobacter jejuni strain M1
    Carsten Friis
    Department of Systems Biology, The Technical University of Denmark, Lyngby, Denmark
    PLoS ONE 5:e12253. 2010

Detail Information

Publications26

  1. doi request reprint The genome BLASTatlas-a GeneWiz extension for visualization of whole-genome homology
    Peter F Hallin
    Center for Biological Sequence Analysis, Department of Systems Biology, The Technical University of Denmark, Lyngby, Denmark
    Mol Biosyst 4:363-71. 2008
    ..This tool can be relevant in many pangenomic as well as in metagenomic studies, by giving a quick overview of clusters of insertion sites, genomic islands and overall homology between a reference sequence and a data set...
  2. ncbi request reprint CBS Genome Atlas Database: a dynamic storage for bioinformatic results and sequence data
    Peter F Hallin
    Center for Biological Sequence Analysis CBS, BioCentrum DTU, Building 208, The Technical University of Denmark, DK 2800 Lyngby, Denmark
    Bioinformatics 20:3682-6. 2004
    ..This solution is tightly fitted to existing server infrastructure and the solutions proposed here can perhaps serve as a template for other research groups to solve database issues...
  3. ncbi request reprint Genome update: sigma factors in 240 bacterial genomes
    Kristoffer Kill
    Center for Biological Sequence Analysis, BioCentrum DTU, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 151:3147-50. 2005
  4. ncbi request reprint Genome update: correlation of bacterial genomic properties
    Peter F Hallin
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 150:3899-903. 2004
  5. ncbi request reprint Ten years of bacterial genome sequencing: comparative-genomics-based discoveries
    Tim T Binnewies
    Center for Biological Sequence Analysis, Technical University of Denmark, 2800, Lyngby, Denmark
    Funct Integr Genomics 6:165-85. 2006
    ..The newly proposed Minimal Information about a Genome Sequence standard has been developed to obtain this information...
  6. ncbi request reprint Genome update: prediction of secreted proteins in 225 bacterial proteomes
    Jannick D Bendtsen
    Center for Biological Sequence Analysis, BioCentrum DTU, The Technical University of Denmark, DK 2800 Kgs, Lyngby, Denmark
    Microbiology 151:1725-7. 2005
  7. ncbi request reprint Genome Update: Protein secretion systems in 225 bacterial genomes
    Tim T Binnewies
    Center for Biological Sequence Analysis, BioCentrum DTU, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 151:1013-6. 2005
  8. ncbi request reprint Genome update: base skews in 200+ bacterial chromosomes
    Peter F Hallin
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 151:633-7. 2005
  9. pmc Characterization of probiotic Escherichia coli isolates with a novel pan-genome microarray
    Hanni Willenbrock
    Center for Biological Sequence Analysis, Technical University of Denmark, 2800 Lyngby, Denmark
    Genome Biol 8:R267. 2007
    ....
  10. pmc Genomic characterization of Campylobacter jejuni strain M1
    Carsten Friis
    Department of Systems Biology, The Technical University of Denmark, Lyngby, Denmark
    PLoS ONE 5:e12253. 2010
    ..Trees based on 16S rRNA sequences and on the total gene families in each genome are presented. The findings are discussed in the background of the proven virulence potential of M1...
  11. pmc On the origins of a Vibrio species
    Tammi Vesth
    Center for Biological Sequence Analysis, Department of Systems Biology, The Technical University of Denmark, Kgs Lyngby, Denmark
    Microb Ecol 59:1-13. 2010
    ..We are able to identify a number of genes that are conserved in, and unique to, V. cholerae. Some of these genes may be crucial to the niche adaptation of this species...
  12. ncbi request reprint Genome update: 2D clustering of bacterial genomes
    Hanni Willenbrock
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 151:333-6. 2005
  13. ncbi request reprint Genome Update: proteome comparisons
    Tim T Binnewies
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 151:1-4. 2005
  14. ncbi request reprint Genome update: tRNAs in sequenced microbial genomes
    David W Ussery
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 150:1603-6. 2004
  15. ncbi request reprint Genome Update: annotation quality in sequenced microbial genomes
    David W Ussery
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 150:2015-7. 2004
  16. ncbi request reprint Genome update: promoter profiles
    David W Ussery
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 150:2791-3. 2004
  17. ncbi request reprint Genome update: prediction of membrane proteins in prokaryotic genomes
    Jannick D Bendtsen
    Center for Biological Sequence Analysis, BioCentrum DTU, Building 208, The Technical University of Denmark, DK 2800 Kgs, Lyngby, Denmark
    Microbiology 151:2119-21. 2005
  18. ncbi request reprint Genome Update: AT content in sequenced prokaryotic genomes
    David W Ussery
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, Lyngby, DK 2800, Denmark
    Microbiology 150:749-52. 2004
  19. ncbi request reprint Genome update: rRNAs in sequenced microbial genomes
    David W Ussery
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, Lyngby, DK 2800, Denmark
    Microbiology 150:1113-5. 2004
  20. ncbi request reprint Genome update: DNA repeats in bacterial genomes
    David W Ussery
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 150:3519-21. 2004
  21. ncbi request reprint Genome update: chromosome atlases
    Peter F Hallin
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 150:3091-3. 2004
  22. ncbi request reprint Genome update: alignment of bacterial chromosomes
    David W Ussery
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, DK 2800 Kgs Lyngby, Denmark
    Microbiology 150:2491-3. 2004
  23. ncbi request reprint Genome update: Length distributions of sequenced prokaryotic genomes
    David W Ussery
    Center for Biological Sequence Analysis, Department of Biotechnology, Building 208, The Technical University of Denmark, Lyngby, DK 2800, Denmark
    Microbiology 150:513-6. 2004
  24. ncbi request reprint Global features of the Alcanivorax borkumensis SK2 genome
    Oleg N Reva
    Klinische Forschergruppe, OE6711, Medizinische Hochschule Hannover, Carl Neuberg Strasse 1, D 30625 Hannover, Germany
    Environ Microbiol 10:614-25. 2008
    ....
  25. ncbi request reprint Origin of replication in circular prokaryotic chromosomes
    Peder Worning
    Biological Sciences, AstraZeneca R and D Lund, Sweden
    Environ Microbiol 8:353-61. 2006
    ..The program and results for all publicly available genomes are available from http://www.cbs.dtu.dk/services/GenomeAtlas/suppl/origin...
  26. pmc The complete genome sequence and analysis of the epsilonproteobacterium Arcobacter butzleri
    William G Miller
    Produce Safety and Microbiology Research Unit, Agricultural Research Service, US Department of Agriculture, Albany, California, United States of America
    PLoS ONE 2:e1358. 2007
    ..Here we present the complete genome sequence of the human clinical isolate, A. butzleri strain RM4018...