Kristoffer Forslund

Summary

Affiliation: Stockholm University
Country: Sweden

Publications

  1. pmc Orthology confers intron position conservation
    Anna Henricson
    Department of Cell and Molecular Biology, Karolinska Institutet, SE 17177 Stockholm, Sweden
    BMC Genomics 11:412. 2010
  2. pmc Domain architecture conservation in orthologs
    Kristoffer Forslund
    Stockholm Bioinformatics Centre, Science for Life Laboratory, Box 1031, Solna, 17121 Sweden
    BMC Bioinformatics 12:326. 2011
  3. doi Predicting protein function from domain content
    Kristoffer Forslund
    Stockholm Bioinformatics Centre, Stockholm University, 10691 Stockholm, Sweden
    Bioinformatics 24:1681-7. 2008
  4. doi Benchmarking homology detection procedures with low complexity filters
    Kristoffer Forslund
    Stockholm Bioinformatics Center, Stockholm University, SE 10691 Stockholm, Sweden
    Bioinformatics 25:2500-5. 2009
  5. pmc InParanoid 7: new algorithms and tools for eukaryotic orthology analysis
    Gabriel Ostlund
    Department of Biochemistry and Biophysics, Stockholm Bioinformatics Centre, AlbaNova University Centre, Stockholm University, SE 10691 Stockholm, Sweden
    Nucleic Acids Res 38:D196-203. 2010
  6. doi Evolution of protein domain architectures
    Kristoffer Forslund
    Stockholm Bioinformatics Centre, Stockholm University, Stockholm, Sweden
    Methods Mol Biol 856:187-216. 2012
  7. doi OrthoDisease: tracking disease gene orthologs across 100 species
    Kristoffer Forslund
    Stockholm Bioinformatics Center, Department of Biochemistry and Biophysics, Stockholm University, AlbaNova, 10691 Stockholm, Sweden
    Brief Bioinform 12:463-73. 2011
  8. ncbi Domain tree-based analysis of protein architecture evolution
    Kristoffer Forslund
    Stockholm Bioinformatics Centre, AlbaNova, Stockholm University, Stockholm, Sweden
    Mol Biol Evol 25:254-64. 2008
  9. pmc The Pfam protein families database
    Robert D Finn
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton Hall, Hinxton, Cambridgeshire, CB10 1SA, UK
    Nucleic Acids Res 36:D281-8. 2008
  10. pmc A novel exploratory method for visual recombination detection
    Korbinian Strimmer
    Department of Statistics, University of Munich, Germany
    Genome Biol 4:R33. 2003

Detail Information

Publications10

  1. pmc Orthology confers intron position conservation
    Anna Henricson
    Department of Cell and Molecular Biology, Karolinska Institutet, SE 17177 Stockholm, Sweden
    BMC Genomics 11:412. 2010
    ..Therefore, we wanted to investigate whether orthologs have a higher degree of intron position conservation (IPC) compared to non-orthologous sequences that are equally similar in sequence...
  2. pmc Domain architecture conservation in orthologs
    Kristoffer Forslund
    Stockholm Bioinformatics Centre, Science for Life Laboratory, Box 1031, Solna, 17121 Sweden
    BMC Bioinformatics 12:326. 2011
    ..We also statistically characterized the extents of different types of domain swapping events across pairs of orthologs and paralogs...
  3. doi Predicting protein function from domain content
    Kristoffer Forslund
    Stockholm Bioinformatics Centre, Stockholm University, 10691 Stockholm, Sweden
    Bioinformatics 24:1681-7. 2008
    ..The relationship between protein domain content and function is important to investigate, to understand how domain combinations encode complex functions...
  4. doi Benchmarking homology detection procedures with low complexity filters
    Kristoffer Forslund
    Stockholm Bioinformatics Center, Stockholm University, SE 10691 Stockholm, Sweden
    Bioinformatics 25:2500-5. 2009
    ..A common benchmark for homology detection procedures is to use SCOP/ASTRAL domain sequences belonging to the same or different superfamilies, but these contain almost no low complexity sequences...
  5. pmc InParanoid 7: new algorithms and tools for eukaryotic orthology analysis
    Gabriel Ostlund
    Department of Biochemistry and Biophysics, Stockholm Bioinformatics Centre, AlbaNova University Centre, Stockholm University, SE 10691 Stockholm, Sweden
    Nucleic Acids Res 38:D196-203. 2010
    ..To facilitate data exchange and comparisons among ortholog databases, we have developed and are making available two XML schemas: SeqXML for the input sequences and OrthoXML for the output ortholog clusters...
  6. doi Evolution of protein domain architectures
    Kristoffer Forslund
    Stockholm Bioinformatics Centre, Stockholm University, Stockholm, Sweden
    Methods Mol Biol 856:187-216. 2012
    ..Finally, we examine whether all known cases of a given domain architecture can be assumed to have a single common origin (monophyly) or have evolved convergently (polyphyly)...
  7. doi OrthoDisease: tracking disease gene orthologs across 100 species
    Kristoffer Forslund
    Stockholm Bioinformatics Center, Department of Biochemistry and Biophysics, Stockholm University, AlbaNova, 10691 Stockholm, Sweden
    Brief Bioinform 12:463-73. 2011
    ..We found large-scale support for this hypothesis as significantly fewer duplications were observed for disease genes in the OrthoDisease ortholog groups...
  8. ncbi Domain tree-based analysis of protein architecture evolution
    Kristoffer Forslund
    Stockholm Bioinformatics Centre, AlbaNova, Stockholm University, Stockholm, Sweden
    Mol Biol Evol 25:254-64. 2008
    ..However, no strong functional bias was found in architectures with multiple origins...
  9. pmc The Pfam protein families database
    Robert D Finn
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton Hall, Hinxton, Cambridgeshire, CB10 1SA, UK
    Nucleic Acids Res 36:D281-8. 2008
    ..sanger.ac.uk/), the USA (http://pfam.janelia.org/) and Sweden (http://pfam.sbc.su.se/), as well as from mirror sites in France (http://pfam.jouy.inra.fr/) and South Korea (http://pfam.ccbb.re.kr/)...
  10. pmc A novel exploratory method for visual recombination detection
    Korbinian Strimmer
    Department of Statistics, University of Munich, Germany
    Genome Biol 4:R33. 2003
    ..To illustrate the method, simulated data and HIV-1 and influenza A datasets are investigated...