Functional Genomics

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  1. 2008
  2. Published

    Malignant Tregs express low molecular splice forms of FOXP3 in Sézary syndrome

    Krejsgaard, T., Gjerdrum, L. M., Ralfkiaer, E., Lauenborg, B., Eriksen, K. W., Mathiesen, A., Bovin, L. F., Gniadecki, R., Geisler, Carsten, Ryder, L. P., Zhang, Q., Wasik, M. A., Ødum, Niels & Woetmann, Anders , 2008, In: Leukemia. p. 2230-2239 9 p.

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

  3. Published

    Two conserved modules of Schizosaccharomyces pombe Mediator regulate distinct cellular pathways

    Linder, T., Rasmussen, N., Samuelsen, C. O., Chatzidaki, E., Baraznenok, V., Beve, J., Henriksen, P., Gustafsson, C. M. & Holmberg, Steen, 2008, In: Nucleic Acids Research. 36, 8, p. 2489-504 15 p.

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

  4. Published

    The genome landscape of ER{alpha}- and ER{beta}-binding DNA regions.

    Liu, Y., Gao, H., Marstrand, T. T., Ström, A., Valen, E., Sandelin, Albin Gustav, Gustafsson, J. & Dahlman-Wright, K., 2008, In: Proceedings of the National Academy of Science of the United States of America.

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

  5. Published

    High variation and very low differentiation in wide ranging plains zebra (Equus quagga): insights from mtDNA and microsatellites

    Lorenzen, Eline, Arctander, P. & Siegismund, Hans Redlef, 2008, In: Molecular Ecology. 17, 12, p. 2812-2824 12 p.

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

  6. Published

    Three reciprocally monophyletic mtDNA lineages elucidate the taxonomic status of Grant's gazelles

    Lorenzen, Eline, Arctander, P. & Siegismund, Hans Redlef, 2008, In: Conservation Genetics. 9, 3, p. 593-601

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

  7. Published

    Mutations in the RAM network confer resistance to the thiol oxidant 4,4'-dipyridyl disulfide

    López-Mirabal, H. R., Winther, Jakob R., Thorsen, M. & Kielland-Brandt, M. C., 2008, In: Molecular Genetics and Genomics. 279, 6, p. 629-42 13 p.

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

  8. Published

    Once in a lifetime: strategies for preventing re-replication in prokaryotic and eukaryotic cells.

    Nielsen, Olaf & Løbner-Olesen, Anders, 2008, In: EMBO Reports. 9, 2, p. 151-156 5 p.

    Research output: Contribution to journal › Review › Research › peer-review

  9. Published

    Nucleotide sequence of pOLA52: a conjugative IncX1 plasmid from Escherichia coli which enables biofilm formation and multidrug efflux

    Norman, A., Hansen, Lars Hestbjerg, She, Q. & Sørensen, Søren Johannes, 2008, In: Plasmid. 60, 1, p. 59-74 15 p.

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

  10. Published

    Mitochondrial DNA diversity and population structure of a forest-dependent rodent, Praomys taitae (Rodentia: Muridae) Heller 1911, in the fragmented forest patches of Taita Hills, Kenya

    Nyakaana, S., Tumusiime, C., Oguge, N., Siegismund, Hans Redlef, Arctander, P. & Muwanika, V., 2008, In: South African Journal of Science. 104, 11/12, p. 499-504

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

  11. Published

    Effective population size dynamics reveal impacts of historic climatic events and recent anthropogenic pressure in African elephants

    Okello, J. B. A., Wittemyer, G., Rasmussen, H. B., Arctander, P., Nyakaana, S., Douglas-Hamilton, I. & Siegismund, Hans Redlef, 2008, In: Molecular Ecology. 17, 17, p. 3788-3799 11 p.

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

  12. Published

    Population genetic structure of savannah elephants in Kenya: conservation and management implications

    Okello, J. B. A., Masembe, C., Rasmussen, H. B., Wittemyer, G., Omondi, P., Kahindi, O., Muwanika, V. B., Arctander, P., Douglas-Hamilton, I., Nyakaana, S. & Siegismund, Hans Redlef, 2008, In: Journal of Heredity. 99, 5, p. 443-452 9 p.

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

  13. Published

    Algorithms for Protein Structure Prediction

    Paluszewski, M., 2008, København: Department of Computer Science, University of Copenhagen. 196 p.

    Research output: Book/Report › Ph.D. thesis › Research

  14. Published

    Model quality assessment using distance constraints from alignments

    Paluszewski, M. & Karplus, K., 2008, In: Proteins - Structure Function and Bioinformatics.

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

  15. Published

    Protein Decoy Generation Using Branch and Bound with Efficient Bounding

    Paluszewski, M. & Winter, Pawel, 2008, Algorithms in Bioinformatics: 8th International Workshop, WABI 2008, Karlsruhe, Germany, September 15-19, 2008, Proceedings. Crandall, K. A. & Lagergren, J. (eds.). Springer, p. 382-393 12 p. (Lecture Notes in Computer Science : Lecture Notes in Bioinformatics; No. 5251).

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

  16. Published

    Evidence for the horizontal transfer of an integrase gene from a fusellovirus to a pRN-like plasmid within a single strain of Sulfolobus and the implications for plasmid survival

    Peng, Xu, 2008, In: Microbiology. 154, Pt 2, p. 383-91 8 p.

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

  17. Published

    Prediction of fat oxidation capacity using 1H-NMR and LC-MS lipid metabolomic data combined with phenotypic data

    Pers, T. H., Martin, F. P., Verdich, C., Holst, C., Johansen, Jens Vilstrup, Astrup, A., Polak, J., Martinez, J. A., Rezzi, S., Blaak, E. E., Saris, W. H. M., Kochhar, S., Macdonald, I. A., Sørensen, T. I. A. & Ramadan, Z., 2008, In: Chemometrics and Intelligent Laboratory Systems. 93, 1, p. 34-42 9 p.

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

  18. Published

    Downstream targets of WRKY33

    Petersen, K., Fiil, Berthe Katrine, Mundy, J. & Petersen, Morten, 2008, In: Plant Signalling & Behavior. 3, 11, p. 1033-1034

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

  19. Published

    Coimmunoprecipitation (co-IP) of Nuclear Proteins and Chromatin Immunoprecipitation (ChIP) from Arabidopsis.

    Petersen, Morten, 2008, In: CSH protocols.

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

  20. Published

    Human GLTP and mutant forms of ACD11 suppress cell death in the Arabidopsis acd11 mutant

    Petersen, N. H. T., McKinney, L. V., Pike, H., Hofius, D., Zakaria, A., Brodersen, P., Petersen, Morten, Brown, R. E. & Mundy, J., 2008, In: FEBS Journal. 275, 17, p. 4378-88 10 p.

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

  21. Published

    ACD 11: Programmed Cell Death, Sphingolipids and Plant Defense

    Petersen, N. H. T., 2008, Department of Biology: Museum Tusculanum. 143 p.

    Research output: Book/Report › Ph.D. thesis › Research

  22. Published

    Crenarchaeal Viruses: Morphotypes and Genomes,

    Prangishvili, P., Basta, P. & Garrett, Roger Antony, 2008, Encyclopedia of Virology (Third Edition). Mahy, B. W. J. & van Regenmortel, M. H. V. (eds.). Elsevier, Vol. 3rd ed.. p. 587-595

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

  23. Published

    Arabidopsis MAP kinase 4 regulates gene expression through transcription factor release in the nucleus

    Qiu, J., Fiil, Berthe Katrine, Petersen, K., Nielsen, H. B., Botanga, C. J., Thorgrimsen, S. P., Palma, K., Suarez Rodriguez, M. C., Sandbech-Clausen, S., Lichota, J., Brodersen, P., Grasser, K. D., Mattsson, O., Glazebrook, J., Mundy, J. & Petersen, Morten, 2008, In: EMBO Journal. 27, 16, p. 2214-2221 8 p.

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

  24. Published

    Age- and tactic-related paternity success in male African elephants

    Rasmussen, H. B., Okello, J. B. A., Wittemyer, G., Siegismund, Hans Redlef, Arctander, P., Vollrath, F. & Douglas-Hamilton, I., 2008, In: Behavioral Ecology. 19, 1, p. 9-15

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

  25. Published

    Cerebral dysautoregulation and the risk of ischemic events in occlusive carotid artery disease

    Reinhard, M., Gerds, Thomas Alexander, Grabiak, D., Zimmermann, P. R., Roth, M., Guschlbauer, B., Timmer, J., Czosnyka, M., Weiller, C. & Hetzel, A., 2008, In: Journal of Neurology. 255, 8, p. 1182-1189 7 p.

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

  26. Published

    Conserved CPEs in the p53 3' untranslated region influence mRNA stability and protein synthesis

    Rosenstierne, M. W., Vinther, Jeppe, Mittler, G., Larsen, L., Mann, M. & Norrild, B., 2008, In: Anticancer Research. 28, 5A, p. 2553-9 6 p.

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

  27. Published

    Prediction of regulatory elements

    Sandelin, Albin Gustav, 2008, In: Methods in Molecular Biology. 453, p. 233-44 11 p.

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

  28. Published

    Host-vector systems for hyperthermophilic archaeon Sulfolobus

    She, Q., Deng, L., Zhu, H., Dreibrøl, M., Awayez, M. & Liang, Y. X., 2008, Microbes and the Environment: Perspective and Challenges. Liu, S-J. & Drake, H. L. (eds.). Beijing: Science Press, Beijing, p. 151-156 6 p.

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

  29. Published

    BayesMD: Flexible Biological Modeling for Motif Discovery

    Tang, M. E., Krogh, Anders & Winther, Ole, 2008, In: Journal of Computational Biology. 15, 10, p. 1347-63 16 p.

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

  30. Published

    Competing to destroy: a fight between two RNA-degradation systems

    Thon, Genevieve, 2008, In: Nature Structural and Molecular Biology. 15, 10, p. 1001-2 2 p.

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

  31. Published

    Histone modifications: Cycling with chromosomal replication

    Thon, Genevieve, 2008, In: Current Biology. 18, 9, p. 380-382 3 p.

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

  32. Published

    Structure of the acidianus filamentous virus 3 and comparative genomics of related archaeal lipothrixviruses

    Vestergaard, G. A., Aramayo, R., Basta, T., Häring, M., Peng, Xu, Brügger, K., Chen, L., Rachel, R., Boisset, N., Garrett, Roger Antony & Prangishvili, D., 2008, In: Journal of Virology. 82, 1, p. 371-381 11 p.

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

  33. Published

    Stygiolobus rod-shaped virus and the interplay of crenarchaeal rudiviruses with the CRISPR antiviral system

    Vestergaard, G. A., Shah, S. A., Bize, A., Reitberger, W., Reuter, M., Phan, H., Briegel, A., Rachel, R., Garrett, Roger Antony & Prangishvili, D., 2008, In: Journal of Bacteriology. 190, 20, p. 6837-6845 8 p.

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

  34. Published

    Modeling promoter grammars with evolving hidden Markov models

    Won, K., Sandelin, Albin Gustav, Marstrand, T. T. & Krogh, Anders, 2008, In: Bioinformatics. 24, 15, p. 1669-75 6 p.

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

  35. Published

    A putative ABC transporter is involved in negative regulation of biofilm formation by Listeria monocytogenes.

    Zhu, X., Long, F., Chen, Y., Knoechel, Susanne, She, Q. & Shi, X., 2008, In: Applied and Environmental Microbiology. 74, 24, p. 7675-7683

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

  36. Published

    WAR: webserver for aligning structural RNAs

    Þórarinsson, E. & Lindgreen, S., 2008, In: Nucleic Acids Research. 36, Suppl. 2, p. W79-W84 6 p.

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

  37. 2009
  38. Published

    A two-step model for senescence triggered by a single critically short telomere

    Abdallah, P., Luciano, P., Runge, K. W., Lisby, Michael, Géli, V., Gilson, E. & Teixeira, M. T., 2009, In: Nature Cell Biology. 11, 8, p. 988-93 5 p.

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

  39. Published

    Dioxin increases the interaction between aryl hydrocarbon receptor and estrogen receptor alpha at human promoters

    Ahmed, S., Valen, E., Sandelin, Albin Gustav & Matthews, J., 2009, In: Toxicological Sciences. 111, 2, p. 254-266

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

  40. Published

    Viruses of the Archaea

    Basta, T., Garrett, Roger Antony & Prangishvili, D., 2009, Encyclopedia of Life Sciences. Wiley, p. 1-8

    Research output: Chapter in Book/Report/Conference proceeding › Encyclopedia chapter › Research

  41. Published

    Novel archaeal plasmid pAH1 and its interactions with the lipothrixvirus AFV1

    Basta, T., Smyth, J., Forterre, P., Prangishvili, D. & Peng, Xu, 2009, In: Molecular Microbiology. 71, 1, p. 23-34 11 p.

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

  42. Published

    Localization of recombination proteins and Srs2 reveals anti-recombinase function in vivo

    Burgess, R. C., Lisby, Michael, Altmannova, V., Krejci, L., Sung, P. & Rothstein, R., 2009, In: Journal of Cell Biology. 185, 6, p. 969-81 12 p.

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

  43. Published

    Unmarked gene deletion and host-vector system for the hyperthermophilic crenarchaeon Sulfolobus islandicus

    Deng, L., Zhu, H., Chen, Z., Liang, Y. X. & She, Q., 2009, In: Extremophiles. 13, 4, p. 735-46 11 p.

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

  44. Published

    Vesicles in electric fields: some novel aspects of membrane behavior

    Dimova, R., Bezlyepkina, N. & Domange Jordö, M. E., 2009, In: Soft Matter. 5, 17, p. 3201-3212 12 p.

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

  45. Published

    RSK is a principal effector of the RAS-ERK pathway for eliciting a coordinate promotile/invasive gene program and phenotype in epithelial cells

    Doehn, U., Hauge, C., Frank, S. R., Jensen, C. A. J., Duda, K., Nielsen, J. V., Cohen, M. S., Johansen, Jens Vilstrup, Winther, B. R., Lund, L. R., Winther, Ole, Taunton, J., Hansen, S. H. & Frödin, Morten, 2009, In: Molecular Cell. 35, 4, p. 511-22 11 p.

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

  46. Published

    Regulation of rDNA stability by sumoylation

    Eckert-Boulet, N. & Lisby, Michael, 2009, In: DNA Repair. 8, 4, p. 507-16 9 p.

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

  47. Published

    Gene regulation by MAP kinase cascades

    Fiil, Berthe Katrine, Petersen, K., Petersen, Morten & Mundy, J., 2009, In: Current Opinion in Plant Biology. 12, 5, p. 615-621 7 p.

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

  48. Published

    Dpb11/TopBP1 contributes to genomicstability via homologous recombinationand checkpoint signaling

    Germann, S. M., 2009, Biologisk Institut: Museum Tusculanum. 175 p.

    Research output: Book/Report › Ph.D. thesis › Research

  49. Published

    An improved PCR method for endogenous DNA retrieval in contaminated Neandertal samples based on the usage of blocking primers

    Gigli, E., Rasmussen, M., Civit, S., Rosas, A., de la Rasilla, M., Fortea, J., Gilbert, M Thomas P, Willerslev, Eske & Lalueza-Fox, C., 2009, In: Journal of Archaeological Science. 36, p. 2676-2679

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

  50. Published

    Response to Comment by Poinar et al. on "DNA from Pre-Clovis Human Coprolites in Oregon, North America"

    Gilbert, M Thomas P, Jenkins, D., Higham, T., Rasmussen, M., Malmstrom, H., Svensson, E., Sanchez, J., Cummings, L., Yohe, I. R., Hofreiter, M., Götherström, A. & Willerslev, Eske, 2009, In: Science. 325, 5937, p. 148 1 p.

    Research output: Contribution to journal › Comment/debate › Research

  51. Published

    Proteins involved in attack and defence in Zygomycete-aphid interactions

    Grell, M. N., Jensen, Annette Bruun & Lange, L., 2009.

    Research output: Contribution to conference › Conference abstract for conference › Research

  52. Published

    Ancient DNA reveals late survival of mammoth and horse in interior Alaska

    Haile, James Seymour, Froese, D. G., Macphee, R. D. E., Roberts, R. G., Arnold, L. J., Reyes, A. V., Rasmussen, M., Nielsen, Rasmus, Brook, B. W., Robinson, S., Demuro, M., Gilbert, M Thomas P, Munch, K., Austin, J. J., Cooper, A., Barnes, I., Möller, P. & Willerslev, Eske, 2009, In: Proceedings of the National Academy of Science of the United States of America. 106, 52, p. 22352-7 5 p.

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

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