Browsing Institutt for informatikk by Author "Lagesen, Karin"

Now showing items 1-8 of 8

  • Analysis of intra-genomic GC content homogeneity within prokaryotes 
    Bohlin, Jon; Snipen, Lars; Hardy, Simon P; Kristoffersen, Anja B; Lagesen, Karin; Dønsvik, Torunn; Skjerve, Eystein; Ussery, David W (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2010)
    Background Bacterial genomes possess varying GC content (total guanines (Gs) and cytosines (Cs) per total of the four bases within the genome) but within a given genome, GC content can vary locally along ...
  • Custom Design and Analysis of High-Density Oligonucleotide Bacterial Tiling Microarrays 
    Thomassen, Gard O Sundby; Rowe, Alexander D.; Lagesen, Karin; Lindvall, Jessica Margareta; Rognes, Torbjørn (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2009)
    Background High-density tiling microarrays are a powerful tool for the characterization of complete genomes. The two major computational challenges associated with custom-made arrays are design and analysis. Firstly, ...
  • Draft genome sequences of 13 Tenacibaculum maritimum isolates from farmed Norwegian Cyclopterus lumpus (lumpfish) and Scophthalmus maximus (turbot) 
    Spilsberg, Bjørn; Nilsen, Hanne Katrine; Gulla, Snorre; Lagesen, Karin; Colquhoun, Duncan John; Olsen, Anne Berit (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2024)
    Thirteen bacterial isolates of Tenacibaculum maritimum were sequenced and assembled. The strains were isolated from four disease outbreaks in farmed marine fish in Norway. Eight isolates were from Cyclopterus lumpus ...
  • Genome dynamics in major bacterial pathogens 
    Ambur, Ole Herman; Davidsen, Tonje; Frye, Stephan Alfons; Balasingham, Seetha; Lagesen, Karin; Rognes, Torbjørn; Tønjum, Tone (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2009)
    Pathogenic bacteria continuously encounter multiple forms of stress in their hostile environments, which leads to DNA damage. With the new insight into biology offered by genome sequences, the elucidation of the gene content ...
  • NucDiff: in-depth characterization and annotation of differences between two sets of DNA sequences 
    Khelik, Ksenia; Lagesen, Karin; Sandve, Geir K; Rognes, Torbjørn; Nederbragt, Alexander J (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2017)
    Background Comparing sets of sequences is a situation frequently encountered in bioinformatics, examples being comparing an assembly to a reference genome, or two genomes to each other. The purpose of the ...
  • Polyether Ionophore Resistance in a One Health Perspective 
    Frederiksen, Rikki Franklin; Urdahl, Anne Margrete; Simm, Roger; Granstad, Silje; Slettemeås, Jannice Schau; Lagesen, Karin; Pikkemaat, mariel (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2024)
    Antimicrobial resistance is a major threat to human health and must be approached from a One Health perspective. Use of antimicrobials in animal husbandry can lead to dissemination and persistence of resistance in human ...
  • Tiling Array Analysis of UV Treated Escherichia coli Predicts Novel Differentially Expressed Small Peptides 
    Thomassen, Gard O Sundby; Sneve, Ragnhild; Rowe, Alexander D.; Booth, James; Lindvall, Jessica M.; Lagesen, Karin; Kristiansen, Knut Ivan; Bjørås, Magnar; Rognes, Torbjørn (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2010)
    Background Despite comprehensive investigation, the Escherichia coli SOS response system is not yet fully understood. We have applied custom designed whole genome tiling arrays to measure UV invoked transcriptional changes ...
  • Tiling array study of MNNG treated Escherichia coli reveals a widespread transcriptional response 
    Booth, James A.; Thomassen, Gard O Sundby; Rowe, Alexander D.; Weel-Sneve, Ragnhild; Lagesen, Karin; Kristiansen, Knut Ivan; Bjørås, Magnar; Rognes, Torbjørn; Lindvall, Jessica Margareta (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2013)
    The alkylating agent N-methyl-N'-nitro-N-nitrosoguanidine (MNNG) is known to trigger the adaptive response by inducing the ada-regulon – consisting of three DNA repair enzymes Ada, AlkB, AlkA and the enigmatic AidB. We ...