Søren Brunak

Søren Brunak

Professor

ORCID: 0000-0003-0316-5866

Publication year:
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1 - 25 out of 342Page size: 25
  1. 2000

  2. A DNA structural atlas for Escherichia coli

    Pedersen, A. G., Jensen, L. J., Brunak, Søren, Staerfeldt, H. H. & Ussery, D., 2000, In: Journal of Molecular Biology. 299, 4, p. 907-30 24 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  3. 2001
  4. Published

    On the total number of genes and their length distribution in complete microbial genomes

    Skovgaard, M., Jensen, Lars Juhl, Brunak, Søren, Ussery, D. & Krogh, Anders, 2001, In: Trends in Genetics. 17, 8, p. 425-8 4 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  5. 2002

  6. The atlas visualisation of genome-wide information

    Skovgaard, M., Jensen, L. J., Friis, C., Stærfeldt, H. H., Worning, P., Brunak, Søren & Ussery, D. W., 2002, Methods in Microbiology. Vol. 33. p. 49-63

    Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review

  7. 2003

  8. Functionality of system components: conservation of protein function in protein feature space

    Jensen, L. J., Ussery, D. & Brunak, Søren, 2003, In: Genome Research. 13, 11, p. 2444-9 6 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  9. Protein feature based identification of cell cycle regulated proteins in yeast

    de Lichtenberg, U., Jensen, T. S., Jensen, L. J. & Brunak, Søren, 2003, In: Journal of Molecular Biology. 329, 4, p. 663-74 12 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  10. 2005

  11. Comparison of computational methods for the identification of cell cycle-regulated genes

    de Lichtenberg, U., Jensen, L. J., Fausbøll, A., Jensen, T. S., Bork, P. & Brunak, Søren, 2005, In: Bioinformatics. 21, 7, p. 1164-71 8 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  12. Dynamic complex formation during the yeast cell cycle

    de Lichtenberg, U., Jensen, L. J., Brunak, Søren & Bork, P., 2005, In: Science (New York, N.Y.). 307, 5710, p. 724-7 4 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  13. Published

    Prediction methods and databases within chemoinformatics: emphasis on drugs and drug candidates

    Jónsdóttir, S. O., Jørgensen, Flemming Steen & Brunak, Søren, 2005, In: Bioinformatics. 21, 10, p. 2145-60 16 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  14. 2006

  15. Co-evolution of transcriptional and post-translational cell-cycle regulation

    Jensen, L. J., Jensen, T. S., de Lichtenberg, U., Brunak, Søren & Bork, P., 2006, In: Nature Study. 443, 7111, p. 594-7 4 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  16. Published

    Growth-rate regulated genes have profound impact on interpretation of transcriptome profiling in Saccharomyces cerevisiae

    Regenberg, Birgitte, Grotkjaer, T., Winther, Ole, Fausbøll, A., Akesson, M., Bro, C., Hansen, L. K., Brunak, Søren & Nielsen, Jens Bo, 2006, In: Genome Biology (Online Edition). 7, 11, p. R107

    Research output: Contribution to journal › Journal article › Research › peer-review

  17. Modelling the human immune system by combining bioinformatics and systems biology approaches

    Rapin, N., Kesmir, C., Frankild, S., Nielsen, M., Lundegaard, C., Brunak, Søren & Lund, O., 2006, In: Journal of Biological Physics. 32, 3-4, p. 335-53 19 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  18. 2007

  19. Analysis of cell death inducing compounds

    Spicker, J., Pedersen, H. T., Brunak, Søren & Nielsen, H. B., 2007, In: Archives of Toxicology. 81, 11, p. 803-11 9 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  20. Evolution of cell cycle control: same molecular machines, different regulation

    de Lichtenberg, U., Jensen, T. S., Brunak, Søren, Bork, P. & Jensen, L. J., 2007, In: Cell Cycle. 6, 15, p. 1819-25 7 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  21. Published

    Integrative analysis for finding genes and networks involved in diabetes and other complex diseases

    Bergholdt, R., Størling, Z. M., Lage, K., Karlberg, E. O., Olason, P. I., Aalund, M., Nerup, J., Brunak, Søren, Workman, C. & Pociot, Flemming, 2007, In: Genome Biology (Online Edition). 8, 11, p. R253

    Research output: Contribution to journal › Journal article › Research › peer-review

  22. Published

    Locating proteins in the cell using TargetP, SignalP and related tools

    Emanuelsson, O., Brunak, Søren, von Heijne, G. & Nielsen, Henrik, 2007, In: Nature Protocols (Online). 2, 4, p. 953-71 19 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  23. Modeling the adaptive immune system: predictions and simulations

    Lundegaard, C., Lund, O., Kesmir, C., Brunak, Søren & Nielsen, M., 2007, In: Bioinformatics (Online). 23, 24, p. 3265-75 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  24. Published

    Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags

    Gorodkin, J., Cirera, S., Hedegaard, J., Gilchrist, M. J., Panitz, F., Jørgensen, C., Scheibye-Knudsen, K., Arvin, T., Lumholdt, S., Sawera, M., Green, T., Nielsen, B., Havgaard, J. H., Rosenkilde, C., Wang, J., Li, H., Li, R., Liu, B., Hu, S., Dong, W. & 16 others, Li, W., Yu, J., Wang, J., Staefeldt, H., Wernersson, R., Madsen, L. B., Thomsen, B. S., Hornshøj, H., Bujie, Z., Wang, X., Wang, X., Bolund, L., Brunak, Søren, Yang, H., Bendixen, C. & Fredholm, Merete, 2007, In: Genome Biology. 8, R45, p. R45 16 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  25. Published

    SNP mining porcine ESTs with MAVIANT, a novel tool for SNP evaluation and annotation

    Panitz, F., Stengaard, H., Hornshøj, H., Gorodkin, J., Hedegaard, J., Cirera, S., Thomsen, B. S., Madsen, L. B., Høj, A., Vingborg, R., Zahn, B., Wang, X., Wang, X., Wernersson, R., Jørgensen, C. B., Scheibye-Knudsen, K., Arvin, T., Lumholdt, S., Sawera, M., Green, T. & 5 others, Nielsen, B., Havgaard, Jakob Hull, Brunak, Søren, Fredholm, Merete & Bendixen, C., 2007, In: Bioinformatics. 23, 13, p. i387-91 5 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  26. The implications of alternative splicing in the ENCODE protein complement

    Tress, M. L., Martelli, P. L., Frankish, A., Reeves, G. A., Wesselink, J. J., Yeats, C., Olason, P. I., Albrecht, M., Hegyi, H., Giorgetti, A., Raimondo, D., Lagarde, J., Laskowski, R. A., López, G., Sadowski, M. I., Watson, J. D., Fariselli, P., Rossi, I., Nagy, A., Kai, W. & 26 others, Størling, Z., Orsini, M., Assenov, Y., Blankenburg, H., Huthmacher, C., Ramírez, F., Schlicker, A., Denoeud, F., Jones, P., Kerrien, S., Orchard, S., Antonarakis, S. E., Reymond, A., Birney, E., Brunak, Søren, Casadio, R., Guigo, R., Harrow, J., Hermjakob, H., Jones, D. T., Lengauer, T., Orengo, C. A., Patthy, L., Thornton, J. M., Tramontano, A. & Valencia, A., 2007, In: Proceedings of the National Academy of Sciences of the United States of America. 104, 13, p. 5495-500 6 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  27. 2008
  28. Published

    A large-scale analysis of tissue-specific pathology and gene expression of human disease genes and complexes

    Hansen, K. L., Hansen, N. T., Karlberg, E. O., Eklund, A. C., Roque, F. S., Donahoe, P. K., Szallasi, Z., Jensen, T. S. & Brunak, Søren, 2008, In: Proceedings of the National Academy of Science of the United States of America. 105, 52, p. 20870-5 5 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  29. Alternative splicing in colon, bladder, and prostate cancer identified by exon array analysis

    Thorsen, K., Sørensen, K., Brems-Eskildsen, A. S., Modin, C., Gaustadnes, M., Hein, A. K., Brunak, Søren, Kruhøffer, M., Laurberg, S., Borre, M. S., Wang, K., Krainer, A. R., Tørring, N., Dyrskjøt, L., Andersen, C. & Orntoft, T. F., 2008, In: Molecular & Cellular Proteomics. 7, 7, p. 1214-24 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  30. Analysis and prediction of gene splice sites in four Aspergillus genomes

    Wang, K., Ussery, D. W. & Brunak, Søren, 2008, In: Fungal Genetics and Biology. 46 Suppl 1, p. S14-8

    Research output: Contribution to journal › Journal article › Research › peer-review

  31. Published

    Circular reasoning rather than cyclic expression

    Jensen, Lars Juhl, de Lichtenberg, U., Jensen, T. S., Brunak, Søren & Bork, P., 2008, In: Genome Biology. 9, 6, p. 403

    Research output: Contribution to journal › Journal article › Research › peer-review

  32. Integration of clinical chemistry, expression, and metabolite data leads to better toxicological class separation

    Spicker, J., Brunak, Søren, Frederiksen, K. & Toft, H., 2008, In: Toxicological sciences : an official journal of the Society of Toxicology. 102, 2, p. 444-54 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  33. Published

    Linear motif atlas for phosphorylation-dependent signaling

    Miller, M. L., Jensen, L. J., Diella, F., Jørgensen, C., Tinti, M., Li, L., Hsiung, M., Parker, S. A., Bordeaux, J., Sicheritz-Ponten, T., Olhovsky, M., Pasculescu, A., Alexander, J., Knapp, S., Blom, N., Bork, P., Li, S., Cesareni, G., Pawson, T., Turk, B. E. & 3 others, Yaffe, M. B., Brunak, Søren & Linding, R., 2008, In: Science Signaling. 1, 35, p. ra2

    Research output: Contribution to journal › Journal article › Research › peer-review

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ID: 12895347