Center for Biological Sequence Analysis

  1. 2016
  2. Published

    Integration of Known DNA, RNA and Protein Biomarkers Provides Prediction of Anti-TNF Response in Rheumatoid Arthritis : results from the COMBINE study. / Folkersen, Lasse; Brynedal, Boel; Marcela Diaz-Gallo, Lina; Ramsköld, Daniel; Shchetynsky, Klementy; Westerlind, Helga; Sundström, Yvonne; Schepis, Danika; Hensvold, Aase; Vivar, Nancy; Eloranta, Maija-Leena; Rönnblom, Lars; Brunak, Søren; Malmström, Vivianne; Catrina, Anca; G. W. Moerch, Ulrik; Klareskog, Lars; Padyukov, Leonid; Berg, Louise.

    In: Molecular Medicine, Vol. 22, 2016, p. 322-328.

    Publication: Research - peer-reviewJournal article – Annual report year: 2016

  3. Published

    Integrative analysis of miRNA and gene expression reveals regulatory networks in tamoxifen-resistant breast cancer. / Joshi, Tejal; Elias, Daniel; Stenvang, Jan; Alves, Carla L.; Teng, Fei; Lyng, Maria B.; Lykkesfeldt, Anne E.; Brünner, Nils; Wang, Jun; Gupta, Ramneek; Workman, Christopher; Ditzel, Henrik J.

    In: OncoTarget, Vol. 7, No. 35, 2016, p. 57239-57253.

    Publication: Research - peer-reviewJournal article – Annual report year: 2016

  4. Published

    Investigating comammox Nitrospira in rapid sand filters via metagenomics and single-cell genomics. / Palomo, Alejandro; Fowler, Jane; Gülay, Arda; Rasmussen, Simon; Schramm, Andreas; Sicheritz-Pontén, Thomas; Smets, Barth F.

    2016. Abstract from MEWE and biofilms IWA specialist conference, Copenhagen, Denmark.

    Publication: Research - peer-reviewConference abstract for conference – Annual report year: 2016

  5. Published

    Investigating the impact of missense mutations in hCES1 by in silico structure-based approaches. / Nzabonimpa, Grace Shema; Rasmussen, Henrik Berg; Brunak, Søren; Taboureau, Olivier .

    In: Drug Metabolism and Personalized Therapy, Vol. 31, No. 2, 2016, p. 97-106.

    Publication: Research - peer-reviewJournal article – Annual report year: 2016

  6. Published

    Plasmodium falciparum var genes expressed in children with severe malaria encode CIDRα1 domains. / Jespersen, Jakob S.; Wang, Christian W.; Mkumbaye, Sixbert I. ; Minja, Daniel T R ; Petersen, Bent; Turner, Louise; Petersen, Jens E. V.; Lusingu, John P. A.; Theander, Thor G.; Lavstsen, Thomas.

    In: EMBO Molecular Medicine, Vol. 8, No. 7, 2016, p. 685-829.

    Publication: Research - peer-reviewJournal article – Annual report year: 2016

  7. Published

    Propionibacterium acnes: disease-causing agent or common contaminant? Detection in diverse patient samples by next generation sequencing. / Mollerup, Sarah; Friis-Nielsen, Jens; Vinner, Lasse; Richter, Stine Raith; Fridholm, Helena; Herrera, Jose Romero; Lund, Ole; Brunak, Søren; Gonzalez-Izarzugaza, Jose Maria; Mourier, Tobias; Nielsen, Lars Peter; Hansen, Anders Johannes.

    In: Journal of Clinical Microbiology, Vol. 54, No. 4, 2016, p. 980-987.

    Publication: Research - peer-reviewJournal article – Annual report year: 2016

  8. Published

    Staphylococcus aureus Transcriptome Architecture : From Laboratory to Infection-Mimicking Conditions. / Mäder, Ulrike; Nicolas, Pierre; Depke, Maren; Pané-Farré, Jan; Debarbouille, Michel; van der Kooi-Pol, Magdalena M; Guérin, Cyprien; Dérozier, Sandra; Hiron, Aurelia; Jarmer, Hanne Østergaard; Leduc, Aurélie; Michalik, Stephan; Reilman, Ewoud; Schaffer, Marc; Schmidt, Frank; Bessières, Philippe; Noirot, Philippe; Hecker, Michael; Msadek, Tarek; Völker, Uwe; van Dijl, Jan Maarten.

    In: P L o S Genetics, Vol. 12, No. 4, e1005962, 2016.

    Publication: Research - peer-reviewJournal article – Annual report year: 2016

  9. Published

    Toxoplasma gondii peptide ligands open the gate of the HLA class I binding groove. / McMurtrey, Curtis; Trolle, Thomas; Sansom, Tiffany; Remesh, Soumya G.; Kaever, Thomas; Bardet, Wilfried; Jackson, Kenneth; McLeod, Rima; Sette, Alessandro; Nielsen, Morten; Zajonc, Dirk M.; Blader, Ira J.; Peters, Bjoern; Hildebrand, William.

    In: eLife, Vol. 5, e12556, 2016.

    Publication: Research - peer-reviewJournal article – Annual report year: 2016

  10. Published

    KinMutRF: a random forest classifier of sequence variants in the human protein kinase superfamily. / Pons, Tirso; Vazquez, Miguel; Matey-Hernandez, María Luisa; Brunak, Søren; Valencia, Alfonso; Gonzalez-Izarzugaza, Jose Maria.

    In: BMC Genomics, Vol. 17, No. Suppl. 2, 396, 2016.

    Publication: Research - peer-reviewJournal article – Annual report year: 2016

  11. Published

    Large-scale detection of antigen-specific T cells using peptide-MHC-I multimers labeled with DNA barcodes. / Bentzen, Amalie Kai; Marquard, Andrea Marion; Lyngaa, Rikke Birgitte; Saini, Sunil Kumar; Andersen, Sofie Ramskov; Donia, Marco; Such, Lina; Furness, Andrew J. S.; McGranahan, Nicholas; Rosenthal, Rachel; Straten, Per Thor; Szallasi, Zoltan Imre; Svane, Inge Marie; Swanton, Charles; Quezada, Sergio A.; Jakobsen, Søren Nyboe; Eklund, Aron Charles; Hadrup, Sine Reker.

    In: Nature Biotechnology, Vol. 34, No. 10, 2016, p. 1037-1045.

    Publication: Research - peer-reviewJournal article – Annual report year: 2016

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