Torbjørn Rognes

Image of Torbjørn Rognes
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Phone +47 22844787
Room 223
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Visiting address Gaustadalléen 30D NEMKO-building 0373 Oslo
Postal address Postboks 1080 Blindern 0316 Oslo

I am a professor of bioinformatics and leading the Research Group for Biomedical Informatics (BMI) at the Department of Informatics, University of Oslo. I am also affiliated with the new Centre for Bioinformatics. In addition, I work as a research scientist at the Department of Microbiology at Rikshospitalet, Oslo University Hospital (OUS).

Scientific interests

I work on problems in bioinformatics, in particular those related to analysis of DNA and protein sequences. Parallelisation of algorithms for sequence comparisons, searching and clustering of large databases are some of the things I've worked a lot with.

Through the position at the hospital, I've also worked quite a bit with applied bioinformatics, often related to characterisation of genes involved in DNA repair.

Recently, I have developed methods and tools for microbiome bioinformatics, where we analyse sequencing data from amplicon sequencing of rRNAs to determine the composition of microorganisms in samples. Some of the same underlying algorithms and data structures have shown to be effective also in comparing adaptive immune receptor sequences.

Research projects

CompAIRR: Comparison of Adaptive Immune Receptor Repertoires

VSEARCH: Open and free 64-bit multithreaded tool for processing metagenomic sequences

SWIPE: Smith-Waterman database searches with inter-sequence SIMD parallelisation

SWARM: A robust and fast clustering method for amplicon-based studies

Publika: Publication database for Oslo University Hospital

Available master thesis projects that I may supervise

Please look at the list of all available master thesis projects at BMI.

Current master students

  • Miriam Tamara Grødeland Aarag (with Karin Lagesen)
  • Ignar Rumbavicious (with Trine B. Rounge)
  • Håvard Tolås Trondsen (with Sinan Uğur Umu and Trine B. Rounge)
  • Behnoosh Ashrafi (with James Booth and Magnar Bjørås)
  • Daniel Kristiansen (with Jonas Paulsen)
  • Amund Isaksen (with Bjarne Johannessen and Rolf I. Skotheim)
  • Hugo Nørholm (with Marcin W. Wojewodzic)
  • Nurettin Yarar (with Marcin W. Wojewodzic)
  • Simon Nordvold Barak (with Paula Istvan and Trine B. Rounge)

Former master students

  • Henrik Høybakk Olsvik (2021, with Trine B. Rounge)
  • Akuzike Banda (with Khuzwayo C. Jere, Chrispin Chaguza, Arox W. Kamng’ona)
  • Sindre Grønmyr (2019, with Junbai Wang and Magnar Bjørås)
  • Karina Borlaug (2019, with Rolf Skotheim)
  • Torgeir P. Tynes (2018)
  • Kristoffer Mjelva (2018)
  • Andreas Glasø Skifjeld (2018, with Karin Lagesen)
  • Aila Aspås (2018, with Karin Lagesen)
  • Sebastian Søberg (2017, with Karin Lagesen)
  • Sean Christian Dutch (2017)
  • Victor Synnes (2017, with Torstein Tengs)
  • Tuva Kristine Thoresen (2015) Fast, Parallel Tools for Genome-wide Analysis of Genomic Divergence (with Geir Kjetil Sandve)
  • Mimi Tantono (2015) Parallelisation of Hierarchical Clustering Algorithms for Metagenomics
  • Reidar A. Brenna (2015) A journey to the core - of man and machine alike (with Jon Hjelmervik, SINTEF)
  • Jorun Ramstad (2015) Protein Alignment on the Intel Xeon Phi Coprocessor (with Jon Hjelmervik, SINTEF)
  • Jakob T. Frielingsdorf (2015) Improving optimal sequence alignments through a SIMD-accelerated library
  • Sabba Ifzal (2015) Reproducibility and reusability pf genome assembly evaluation (with Lex Nederbragt, Geir Kjetil Sandve and Ksenia Khelik)
  • Anders Ramsvik Bragstad (2013) Dynamic benchmarking in bioinformatics (with Geir Kjetil Sandve)
  • Runar Furenes (2013) Genome Assembly: Scaffolding Guided by Related Genomes
  • Matias Holte (2013) Assessment of genomic variant calling methods through simulations
  • Bjørnar A. Ruud (2011) Parallel alignment of short sequence reads on graphics processors
  • Espen Hannisdal (2010) Effective comparison of genetic sequences on parallel computer architectures
  • Daniel Johan Hammer Nebdal (2008) Presenting overrepresented words (with Einar A. Rødland)
  • Arne Olaf Godtland (2007) Aligning of short sequences to whole genomes and a program to verify PCR primers (with Anja B. Kristoffersen)
  • Lise Henriksen (2007) Database of Genes Involved in DNA Repair
  • Geir Ivar Jerstad (2006) Merging the physical properties of DNA with genomic annotations in Ensembl (with Eivind Hovig)
  • Josef Thingnes (2004) Identifisering av ikkje-kodande RNA ved hjelp av samvariansmodellar
  • Gard O. S. Thomassen (2004) Detection of non-coding RNA genes by searching for transcription signals in intergenic regions

Please see the list of all former BMI students for links to their master thesis publications.

Current PhD students

  • Roberto Rossini (with Jonas Paulsen)
  • Jonas Christoffer Lindstrøm (with Hilde L. Nilsen)

Former PhD students

  • Eva Lena Fjeld Estensmo (with Håvard Kauserud and others) (2020)
  • Ksenia Khelik (with Lex Nederbragt, Geir Kjetil Sandve and Karin Lagesen) (2019)
  • Srinidhi Varadharajan (with Asbjørn Vøllestad and others) (2019)
  • Pubudu Samarakoon (with Dag Undlien and Robert Lyle) (2017)
  • Bjarne Johannessen (with Rolf Skotheim) (2016)
  • Håvard Aanes (with Peter Alestrøm) (2014)
  • Sabry Razick (with Ian Donaldson) (2012)
  • Sigve Nakken (with Eivind Hovig) (2010)
  • Gard O.S. Thomassen (2010)
  • Karin Lagesen (with Dave W. Ussery) (2008)

Courses where I have the main responsibility

  • IN4030 Introduction to bioinformatics
  • INF5380 / INF9380 - High Performance Computing in Bioinformatics
  • IN-BIOS5000IN-BIOS9000 - Genome Sequencing Technologies, Assembly, Variant Calling and Statistical Genomics

Courses where I am contributing

  • BIO9905MERG1 - Bioinformatics for Environmental Sequencing (DNA metabarcoding)
  • BIOS4010 - Methods in molecular biology and biochemistry I
  • BIOS-IN5410 / BIOS-IN9410 - Bioinformatics for molecular biology
  • IN3130 - Algorithms: Design and Efficiency

Courses that I have contributed to earlier

  • INF325 Introduction to bioinformatics
  • INF2300 Introduction to bioinformatics
  • INF3350 Introduction to bioinformatics
  • INF4130 Algorithms: design and efficiency
  • INF4350 Introduction to bioinformatics
  • INF5330 Bioinformatics
  • INF5340 Algorithms in bioinformatics
  • KJB492 Bioinformatics
  • MBV4010 Methods in molecular biology and biochemistry I
  • MBV-INF4410 / MBV-INF9410 / MBV-INF9410A Applied readings in mathematics
  • MBV9100BTS / MNBTS400 / MNBTS9000 Molecular biology research course
  • MF9210 Laboratory course in molecular biology

Talks

23 October 2014 - Open access from a researcher’s perspective. Open Access Week, Medical Library, University of Oslo.

My profile on other sites

Tags: Life sciences, Bioinformatics, Algorithms, Parallelisation, Microbiome

Publications

  • Kværner, Ane Sørlie; Birkeland, Einar Elvbakken; Bucher-Johannessen, Cecilie; Vinberg, Elina; Nordby, Jan Inge & Kangas, Harri [Show all 27 contributors for this article] (2021). The CRCbiome study: a large prospective cohort study examining the role of lifestyle and the gut microbiome in colorectal cancer screening participants. BMC Cancer. ISSN 1471-2407. 21. doi: 10.1186/s12885-021-08640-8. Full text in Research Archive
  • Mahé, Frédéric; Czech, Lucas; Stamatakis, Alexandros; Quince, Christopher; de Vargas, Colomban & Dunthorn, Micah [Show all 7 contributors for this article] (2021). Swarm v3: towards tera-scale amplicon clustering. Bioinformatics. ISSN 1367-4803. doi: 10.1093/bioinformatics/btab493. Full text in Research Archive
  • Eriksson, Anna Maria; Leikfoss, Ingvild Sørum; Abrahamsen, Greger; Gjerstad, Vibeke Sundvold; Mesel Isom, Martine & Keshari, Pankaj [Show all 12 contributors for this article] (2021). Exploring the role of the multiple sclerosis susceptibility gene CLEC16A in T cells. Scandinavian Journal of Immunology. ISSN 0300-9475. 94(1). doi: 10.1111/sji.13050. Full text in Research Archive
  • Snipen, Lars; Angell, Inga-Leena; Rognes, Torbjørn & Rudi, Knut (2021). Reduced metagenome sequencing for strain-resolution taxonomic profiles. Microbiome. ISSN 2049-2618. 9(1). doi: 10.1186/s40168-021-01019-8. Full text in Research Archive
  • Farooq, Amna; Grønmyr, Sindre; Omer, Ali Avan; Rognes, Torbjørn; Scheffler, Katja & Bjørås, Magnar [Show all 7 contributors for this article] (2020). HMST-Seq-Analyzer: A new python tool for differential methylation and hydroxymethylation analysis in various DNA methylation sequencing data. Computational and Structural Biotechnology Journal. ISSN 2001-0370. 18, p. 2877–2889. doi: 10.1016/j.csbj.2020.09.038. Full text in Research Archive
  • Khelik, Ksenia; Sandve, Geir Kjetil; Nederbragt, Alexander Johan & Rognes, Torbjørn (2020). NucBreak: location of structural errors in a genome assembly by using paired-end Illumina reads. BMC Bioinformatics. ISSN 1471-2105. 21(1). doi: 10.1186/s12859-020-3414-0. Full text in Research Archive
  • Safavi, Shiva; Larouche, Ariane; Zahn, Astrid; Patenaude, Anne-Marie; Domanska, Diana Ewa & Dionne, Kiersten [Show all 17 contributors for this article] (2020). The uracil-DNA glycosylase UNG protects the fitness of normal and cancer B cells expressing AID. NAR Cancer. ISSN 2632-8674. 2(3). doi: 10.1093/narcan/zcaa019. Full text in Research Archive
  • Khelik, Ksenia; Lagesen, Karin; Sandve, Geir Kjetil; Rognes, Torbjørn & Nederbragt, Alexander Johan (2017). NucDiff: in-depth characterization and annotation of differences between two sets of DNA sequences. BMC Bioinformatics. ISSN 1471-2105. 18(1), p. 1–14. doi: 10.1186/s12859-017-1748-z. Full text in Research Archive
  • Alsøe, Lene; Sarno, Antonio; Carracedo Huroz, Sergio; Domanska, Diana Ewa; Dingler, Felix & Lirussi, Lisa [Show all 16 contributors for this article] (2017). Uracil Accumulation and Mutagenesis Dominated by Cytosine Deamination in CpG Dinucleotides in Mice Lacking UNG and SMUG1. Scientific Reports. ISSN 2045-2322. 7(1). doi: 10.1038/s41598-017-07314-5. Full text in Research Archive
  • Rognes, Torbjørn; Flouri, Tomáš; Nichols, Ben; Quince, Christopher & Mahé, Frédéric (2016). VSEARCH: A versatile open source tool for metagenomics. PeerJ. ISSN 2167-8359. 4(10). doi: 10.7717/peerj.2584. Full text in Research Archive
  • Namouchi, Amine; Gomez Munoz, Marta; Frye, Stephan Alfons; Moen, Line Victoria; Rognes, Torbjørn & Tonjum, Tone [Show all 7 contributors for this article] (2016). The Mycobacterium tuberculosis transcriptional landscape under genotoxic stress. BMC Genomics. ISSN 1471-2164. 17:791, p. 1–13. doi: 10.1186/s12864-016-3132-1. Full text in Research Archive
  • Kopylova, Evguenia; Navas-Molina, Jose A.; Mercier, Céline; Xu, Zhenjiang Zech; Mahé, Frédéric & He, Yan [Show all 10 contributors for this article] (2016). Open-source sequence clustering methods improve the state of the art. mSystems. ISSN 2379-5077. 1(1). doi: 10.1128/mSystems.00003-15. Full text in Research Archive
  • Samarakoon, Pubudu Saneth; Sorte, Hanne Sørmo; Stray-Pedersen, Asbjørg; Rødningen, Olaug Kristin; Rognes, Torbjørn & Lyle, Robert (2016). cnvScan: A CNV screening and annotation tool to improve the clinical utility of computational CNV prediction from exome sequencing data. BMC Genomics. ISSN 1471-2164. 17(51). doi: 10.1186/s12864-016-2374-2. Full text in Research Archive
  • Ougland, Rune; Rognes, Torbjørn; Klungland, Arne & Larsen, Elisabeth (2015). Non-homologous functions of the AlkB homologs. Journal of Molecular Cell Biology. ISSN 1674-2788. 7(6), p. 494–504. doi: 10.1093/jmcb/mjv029.
  • Yang, Mingyi; Lin, Xiaolin; Rowe, Alexander D.; Rognes, Torbjørn; Eide, Lars & Bjørås, Magnar (2015). Transcriptome analysis of human OXR1 depleted cells reveals its role in regulating the p53 signaling pathway. Scientific Reports. ISSN 2045-2322. 5. doi: 10.1038/srep17409. Full text in Research Archive
  • Mahé, Frédéric; Rognes, Torbjørn; Quince, Christopher; de Vargas, Colomban & Dunthorn, Micah (2015). Swarm v2: highly-scalable and high-resolution amplicon clustering. PeerJ. ISSN 2167-8359. 3. doi: 10.7717/peerj.1420. Full text in Research Archive
  • Mahé, Frédéric; Rognes, Torbjørn; Quince, Christopher; de Vargas, Colomban & Dunthorn, Micah (2015). Swarm v2: highly-scalable and high-resolution amplicon clustering. PeerJ Preprints. ISSN 2167-9843. 3. doi: 10.7287/peerj.preprints.1222v2.
  • Mahé, Frédéric; Rognes, Torbjørn; Quince, Christopher; de Vargas, Colomban & Dunthorn, Micah (2014). Swarm: robust and fast clustering method for amplicon-based studies. PeerJ Preprints. ISSN 2167-9843. 2. doi: 10.7287/peerj.preprints.386v1.
  • Mahé, Frédéric; Rognes, Torbjørn; Quince, Christopher; de Vargas, Colomban & Dunthorn, Micah (2014). Swarm: robust and fast clustering method for amplicon-based studies. PeerJ. ISSN 2167-8359. 2014(1). doi: 10.7717/peerj.593. Full text in Research Archive
  • Aanes, Håvard; Winata, Cecilia L.; Moen, Lars Fredrik; Østrup, Olga; Mathavan, Sinnakaruppan & Collas, Philippe [Show all 8 contributors for this article] (2014). Normalization of RNA-Sequencing Data from Samples with Varying mRNA Levels. PLOS ONE. ISSN 1932-6203. 9(2). doi: 10.1371/journal.pone.0089158.
  • Booth, James A.; Thomassen, Gard O Sundby; Rowe, Alexander D.; Weel-Sneve, Ragnhild; Lagesen, Karin & Kristiansen, Knut Ivan [Show all 9 contributors for this article] (2013). Tiling array study of MNNG treated Escherichia coli reveals a widespread transcriptional response. Scientific Reports. ISSN 2045-2322. 3. doi: 10.1038/srep03053. Full text in Research Archive
  • Backe, Paul Hoff; Simm, Roger; Lærdahl, Jon Kristen; Dalhus, Bjørn; Fagerlund, Annette & Økstad, Ole Andreas Løchen [Show all 10 contributors for this article] (2013). A new family of proteins related to the HEAT-like repeat DNA glycosylases with affinity for branched DNA structures. Journal of Structural Biology. ISSN 1047-8477. 183(1), p. 66–75. doi: 10.1016/j.jsb.2013.04.007. Full text in Research Archive
  • Søberg, Kristoffer; Jahnsen, Tore; Rognes, Torbjørn; Skålhegg, Bjørn Steen & Lærdahl, Jon Kristen (2013). Evolutionary Paths of the cAMP-Dependent Protein Kinase (PKA) Catalytic Subunits. PLOS ONE. ISSN 1932-6203. 8(4). doi: 10.1371/journal.pone.0060935. Full text in Research Archive
  • Weel-Sneve, Ragnhild; Kristiansen, Knut Ivan; Odsbu, Ingvild; Dalhus, Bjørn; Booth, James & Rognes, Torbjørn [Show all 8 contributors for this article] (2013). Single Transmembrane Peptide DinQ Modulates Membrane-Dependent Activities. PLoS Genetics. ISSN 1553-7390. 9(2). doi: 10.1371/journal.pgen.1003260. Full text in Research Archive
  • Ougland, Rune; Lando, David; Jonson, Ida; Dahl, John Arne; Moen, Marivi & Nordstrand, Line Mari [Show all 11 contributors for this article] (2012). ALKBH1 Is a Histone H2A Dioxygenase Involved in Neural Differentiation. Stem Cells. ISSN 1066-5099. 30(12), p. 2672–2682. doi: 10.1002/stem.1228. Full text in Research Archive
  • Søberg, Kristoffer; Larsen, Anja C V; Diskar, Mandy; Backe, Paul Hoff; Bjørås, Magnar & Jahnsen, Tore [Show all 10 contributors for this article] (2012). Identification and Characterization of Novel Mutations in the Human Gene Encoding the Catalytic Subunit Calpha of Protein Kinase A (PKA). PLOS ONE. ISSN 1932-6203. 7(4). doi: 10.1371/journal.pone.0034838. Full text in Research Archive
  • Nordstrand, Line Mari; Furu, Kari; Paulsen, Jonas; Rognes, Torbjørn & Klungland, Arne (2012). Alkbh1 and Tzfp repress a non-repeat piRNA cluster in pachytene spermatocytes. Nucleic Acids Research (NAR). ISSN 0305-1048. 40(21), p. 10950–10963. doi: 10.1093/nar/gks839. Full text in Research Archive
  • Yang, Mingyi; Aamodt, Randi; Dalhus, Bjørn; Balasingham, Seetha ; Helle, Ina Høydal & Andersen, Pernille Strøm [Show all 10 contributors for this article] (2011). The ada operon of Mycobacterium tuberculosis encodes two DNA methyltransferases for inducible repair of DNA alkylation damage. DNA Repair. ISSN 1568-7864. 10(6), p. 595–602. doi: 10.1016/j.dnarep.2011.03.007.
  • Lærdahl, Jon Kristen; Korvald, Hanne; Nilsen, Line; Dahl-Michelsen, Kristin; Rognes, Torbjørn & Bjørås, Magnar [Show all 7 contributors for this article] (2011). Schizosaccharomyces pombe encodes a mutated AP endonuclease 1. DNA Repair. ISSN 1568-7864. 10(3), p. 296–305. doi: 10.1016/j.dnarep.2010.11.014.
  • Rognes, Torbjørn (2011). Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation. BMC Bioinformatics. ISSN 1471-2105. 12. doi: 10.1186/1471-2105-12-221. Full text in Research Archive
  • Thomassen, Gard O Sundby; Sneve, Ragnhild; Rowe, Alexander D.; Booth, James; Lindvall, Jessica M. & Lagesen, Karin [Show all 9 contributors for this article] (2010). Tiling Array Analysis of UV Treated Escherichia coli Predicts Novel Differentially Expressed Small Peptides. PLOS ONE. ISSN 1932-6203. 5(12). doi: 10.1371/journal.pone.0015356. Full text in Research Archive
  • Nordstrand, Line Mari; Svärd, Jessica; Larsen, Elisabeth; Nilsen, Anja; Ougland, Rune & Furu, Kari [Show all 11 contributors for this article] (2010). Mice Lacking Alkbh1 Display Sex-Ratio Distortion and Unilateral Eye Defects. PLOS ONE. ISSN 1932-6203. 5(11). doi: 10.1371/journal.pone.0013827. Full text in Research Archive
  • Møllersen, Linda; Rowe, Alexander D.; Larsen, Elisabeth; Rognes, Torbjørn & Klungland, Arne (2010). Continuous and Periodic Expansion of CAG Repeats in Huntington's Disease R6/1 Mice. PLoS Genetics. ISSN 1553-7390. 6(12). doi: 10.1371/journal.pgen.1001242. Full text in Research Archive
  • Fensgård, Øyvind; Kassahun, Henok; Izabela Agnieszka, Bombik; Rognes, Torbjørn; Lindvall, Jessica Margareta & Nilsen, Hilde (2010). A Two-tiered compensatory response to loss of DNA repair modulates aging and stress response pathways. Aging. ISSN 1945-4589. Full text in Research Archive
  • Ambur, Ole Herman; Davidsen, Tonje; Frye, Stephan Alfons; Balasingham, Seetha ; Lagesen, Karin & Rognes, Torbjørn [Show all 7 contributors for this article] (2009). Genome dynamics in major bacterial pathogens. FEMS Microbiology Reviews. ISSN 0168-6445. 33(3), p. 453–470. doi: 10.1111/j.1574-6976.2009.00173.x. Full text in Research Archive
  • Robertson, AB; Klungland, A; Rognes, T & Leiros, Ingar (2009). DNA Repair in Mammalian Cells. Cellular and Molecular Life Sciences (CMLS). ISSN 1420-682X. 66(6), p. 981–993. doi: 10.1007/s00018-009-8736-z.
  • Skotheim, Rolf Inge; Thomassen, Gard O Sundby; Eken, Marthe; Lind, Guro Elisabeth; Micci, Francesca & Ribeiro, FR [Show all 11 contributors for this article] (2009). A universal assay for detection of oncogenic fusion transcripts by oligo microarray analysis. Molecular Cancer. ISSN 1476-4598. 8. doi: 10.1186/1476-4598-8-5. Full text in Research Archive
  • Nakken, Sigve; Rødland, Einar Andreas; Rognes, Torbjørn & Hovig, Eivind (2009). Large-scale inference of the point mutational spectrum in human segmental duplications. BMC Genomics. ISSN 1471-2164. 10. doi: 10.1186/1471-2164-10-43. Full text in Research Archive
  • Thomassen, Gard O Sundby; Rowe, Alexander D.; Lagesen, Karin; Lindvall, Jessica Margareta & Rognes, Torbjørn (2009). Custom Design and Analysis of High-Density Oligonucleotide Bacterial Tiling Microarrays. PLOS ONE. ISSN 1932-6203. 4(6). Full text in Research Archive
  • Nakken, Sigve; Rognes, Torbjørn & Hovig, Eivind (2009). The disruptive positions in human G-quadruplex motifs are less polymorphic and more conserved than their neutral counterparts. Nucleic Acids Research (NAR). ISSN 0305-1048. 37(17), p. 5749–5756. doi: 10.1093/nar/gkp590. Full text in Research Archive
  • Cameron, Jamie; Holla, Øystein Lunde; Lærdahl, Jon Kristen; Kulseth, Mari Ann; Ranheim, Trine & Rognes, Torbjørn [Show all 8 contributors for this article] (2008). Characterization of novel mutations in the catalytic domain of the PCSK9 gene. Journal of Internal Medicine. ISSN 0954-6820. 263(4), p. 420–431. doi: 10.1111/j.1365-2796.2007.01915.x.
  • Cameron, J; Holla, OL; Laerdahl, JK; Kulseth, MA; Ranheim, T & Rognes, Torbjørn [Show all 8 contributors for this article] (2008). Characterization of novel mutations in the catalytic domain of the PCSK9 gene. Journal of Internal Medicine. ISSN 0954-6820. 263(4), p. 420–431. doi: 10.1111/j.1365-2796.2007.01915.x.
  • Klungland, Arne; Lærdahl, Jon Kristen & Rognes, Torbjørn (2007). OGG1: From Structural Analysis to the Knockout Mouse. In Evans, Mark D. & Cooke, Marcus S. (Ed.), Oxidative Damage to Nucleic Acids. Springer Science+Business Media B.V.. ISSN 9780387729732. p. 67–80.
  • Nakken, Sigve; Alseth, Ingrun & Rognes, Torbjørn (2007). Computational prediction of the effects of non-synonymous single nucleotide polymorphisms in human DNA repair genes. Neuroscience. ISSN 0306-4522. 145. doi: 10.1016/j.neuroscience.2006.09.004.
  • Dalhus, Bjørn; Helle, Ina Høydal; Backe, Paul Hoff; Alseth, Ingrun; Rognes, Torbjørn & Bjørås, Magnar [Show all 7 contributors for this article] (2007). Structural insight into repair of alkylated DNA by a new superfamily of DNA glycosylases comprising HEAT-like repeats. Nucleic Acids Research (NAR). ISSN 0305-1048. 35(7), p. 2451–2459. doi: 10.1093/nar/gkm039. Full text in Research Archive
  • Lagesen, K; Hallin, P; Rødland, Einar Andreas; Staerfeldt, HH; Rognes, T & Ussery, DW (2007). RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Research (NAR). ISSN 0305-1048. 35. doi: 10.1093/nar/gkm160. Full text in Research Archive
  • Røyrvik, Ellen Christine; Ahlquist, Terje Cruickshank; Rognes, Torbjørn & Lothe, Ragnhild A (2007). Slip Slidin' Away: A Duodecennial Review of Targeted Genes in Mismatch Repair Deficient Colorectal Cancer. Critical reviews in oncogenesis. ISSN 0893-9675. 13(1), p. 229–257. doi: 10.1615/CritRevOncog.v13.i3.20.
  • Alseth, Ingrun; Rognes, Torbjørn; Lindbäck, Toril; Solberg, Inger; Robertsen, Kristin & Kristiansen, Knut Ivan [Show all 10 contributors for this article] (2006). A new protein superfamily includes two novel 3-methyladenine DNA glycosylases from Bacillus cereus, AlkC and AlkD. Molecular Microbiology. ISSN 0950-382X. 59(5), p. 1602–1609. Full text in Research Archive
  • Thomassen, Gard O. S.; Rosok, Oystein & Rognes, Torbjørn (2006). Computational prediction of microRNAs encoded in viral and other genomes. Journal of Biomedicine and Biotechnology. ISSN 1110-7243. Full text in Research Archive
  • Alseth, Ingrun; Rognes, Torbjørn; Lindbäck, Toril; Solberg, Inger; Robertsen, Kristin & Kristiansen, Knut Ivan [Show all 10 contributors for this article] (2006). A new protein superfamily includes two novel 3-methyladenine DNA glycosylases from Bacillus cereus, AlkC and AlkD. Molecular Microbiology. ISSN 0950-382X. 59. doi: 10.1111/j.1365-2958.2006.05044.x. Full text in Research Archive
  • Sætrom, Pål; Sneve, Ragnhild; Kristiansen, Knut Ivan; Snøve, Ola; Grünfeld, Thomas & Rognes, Torbjørn [Show all 7 contributors for this article] (2005). Predicting non-coding RNA genes in Escherichia coli with boosted genetic programming. Nucleic Acids Research (NAR). ISSN 0305-1048. 33, p. 3263–3270. Full text in Research Archive
  • Sæbø, Per Eystein; Andersen, SM; Myrseth, Jon; Lærdahl, Jon Kristen & Rognes, Torbjørn (2005). PARALIGN: rapid and sensitive sequence similarity searches powered by parallel computing technology. Nucleic Acids Research (NAR). ISSN 0305-1048. 33. doi: 10.1093/nar/gki423. Full text in Research Archive
  • Davidsen, Tonje; Rødland, Einar Andreas; Lagesen, Karin; Seeberg, Erling Christen; Rognes, Torbjørn & Tønjum, Tone (2004). Biased distribution of DNA uptake sequences towards genome maintenance genes. Nucleic Acids Research (NAR). ISSN 0305-1048. 32(3), p. 1050–1058. Full text in Research Archive

View all works in Cristin

  • Alsøe, Lene; Sarno, Antonio; Carracedo Huroz, Sergio; Domanska, Diana Ewa; Dingler, Felix & Lirussi, Lisa [Show all 16 contributors for this article] (2017). Uracil Accumulation and Mutagenesis Dominated by Cytosine Deamination in CpG Dinucleotides in Mice Lacking UNG and SMUG1 .
  • Dalhus, Bjørn; Backe, Paul Hoff; Lærdahl, Jon Kristen; Rowe, Alexander D.; Blicher, Pernille & Forstrøm, Rune Johansen [Show all 8 contributors for this article] (2015). Helse Sør-Øst Core Facility for Structural Biology and Bioinformatics.
  • Hovig, Eivind & Rognes, Torbjørn (2015). Bioinformatikk - å forstå teksten. In Hessen, Dag Olav; Lie, Thore & Stenseth, Nils Christian (Ed.), Mendels arv - Genetikkens æra. Gyldendal Norsk Forlag A/S. ISSN 978-82-05-45818-5. p. 329–354.
  • Andersen, Pernille Strøm; Backe, Paul Hoff; Lærdahl, Jon Kristen; Rowe, Alexander; Forstrøm, Rune Johansen & Rognes, Torbjørn [Show all 8 contributors for this article] (2014). Helse Sør-Øst Core Facility for Structural Biology and Bioinformatics.
  • Tørresen, Ole Kristian; Nederbragt, Alexander Johan; Lagesen, Karin; Khelik, Ksenia; Rognes, Torbjørn & Jentoft, Sissel [Show all 7 contributors for this article] (2012). Improving the cod genome with the use of multi-platform sequencing data.
  • Nederbragt, Alexander Johan; Tørresen, Ole Kristian; Khelik, Ksenia; Lagesen, Karin; Rounge, Trine Ballestad & Star, Bastiaan [Show all 13 contributors for this article] (2012). Challenges and Opportunities for Improving the Atlantic Cod Genome Assembly and Annotation.
  • Ambur, Ole Herman; Alfsnes, Kristian; Hovland, Eirik; Homberset, Håvard; Lærdahl, Jon Kristen & Frye, Stephan Alfons [Show all 9 contributors for this article] (2010). Mechanisms of neisserial transformation and the evolution of sexual reproduction.
  • Fensgård, Øyvind; Lindvall, Jessica Margareta; Kassahun, Henok; Rognes, Torbjørn & Nilsen, Hilde (2009). Microarray analysis of BER mutants.
  • Fensgård, Øyvind; Lindvall, Jessica; Kassahun, Henok; Rognes, Torbjørn & Nilsen, Hilde (2009). Microarray analysis of BER mutants.
  • Rognes, Torbjørn (2006). PARALIGN: Rapid Sequence Similarity Searches Utilizing Several Levels of Parallelism.
  • Robertsen, Kristin; Kristoffersen, Anja Bråthen & Rognes, Torbjørn (2006). Phylogenetic profiles for identifying new DNA-repair proteins.
  • Davidsen, Tonje; Rødland, Einar Andreas; Lagesen, Karin; Frye, Stephan Alfons; Ambur, Ole Herman & Rognes, Torbjørn (2003). Biased distribution of bacterial DNA uptake sequences towards genome maintenance genes.
  • Davidsen, Tonje; Frye, Stephan Alfons; Balasingham, Seetha; Assalkhou, Reza; Rognes, Torbjørn & Bjørås, Magnar [Show all 8 contributors for this article] (2002). Genome maintenance in Neisseria meningitidis: the role of base excision repair.
  • Nakken, Sigve & Rognes, Torbjørn (2010). Inference of molecular mechanisms from sequence patterns in human DNA variation. Unipub forlag.
  • Thomassen, Gard O Sundby & Rognes, Torbjørn (2010). Design, analysis and applications of custom high-density oligonucleotide microarrays. Unipub forlag. ISSN 978-82-8072-495-3.
  • Lagesen, Karin & Rognes, Torbjørn (2008). Computational characterization of ribosomal RNAs in prokaryotes. Unipub forlag. ISSN 978-82-8072-773-2.

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Published Nov. 4, 2010 2:15 PM - Last modified Nov. 29, 2021 2:30 PM