Functional Genomics

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  1. Published

    Reverse gyrase functions in genome integrity maintenance by protecting DNA breaks in vivo

    Han, W., Feng, X. & She, Q., Jul 2017, In: International Journal of Molecular Sciences. 18, 7, 13 p., 1340.

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

  2. Published

    Transposon tagging and gene targeting in Lotus japonicus

    Handberg, K., Thykjaer, T., Stiller, J., She, Q. & Stougaard, J., 1993, Current Plant Science and Biotechnology in Agriculture; New horizons in nitrogen fixation (R. Palacios, J. Mora W. E. Newton eds). p. 342 1 p.

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

  3. Published

    Statistical evidence for miscoding lesions in ancient DNA templates

    Hansen, Anders Johannes, Willerslev, Eske, Wiuf, C., Mourier, T. & Arctander, P., 2001, In: Molecular Biology and Evolution. 18, 2, p. 262-65 4 p.

    Research output: Contribution to journal › Letter › Research

  4. Published

    H3K9me-independent gene silencing in fission yeast heterochromatin by Clr5 and histone deacetylases

    Hansen, K. R., Hazan, I., Shanker, S., Watt, S., Hansen, J. V., Bähler, J., Martienssen, R. A., Partridge, J. F., Cohen, A. & Thon, Genevieve, 2011, In: P L o S Genetics. 7, 1, 16 p.

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

  5. Published

    Cholecystokinin-2 receptor mediated gene expression in neuronal PC12 cells

    Hansen, T. V. O., Borup, R., Marstrand, T., Rehfeld, Jens Frederik & Nielsen, Finn Cilius, 2007, In: Journal of Neurochemistry. 104, 6, p. 1450-65 15 p.

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

  6. Published

    Adenosine triphosphatases of thermophilic archaeal double-stranded DNA viruses

    Happonen, L. J., Erdmann, S., Garrett, Roger Antony & Butcher, S. J., 2014, In: Cell & Bioscience. 4, 37, p. 37-52 16 p.

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

  7. Published

    Familial relationships in hyperthermo- and acidophilic archaeal viruses

    Happonen, L. J., Redder, P., Peng, Xu, Reigstad, L. J., Prangishvili, D. & Butcher, S. J., 1 May 2010, In: Journal of Virology. 84, 9, p. 4747-54 8 p.

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

  8. Published

    Toxins, Targets, and Triggers: An Overview of Toxin-Antitoxin Biology

    Harms, A., Brodersen, D. E., Mitarai, Namiko & Gerdes, K., 7 Jun 2018, In: Molecular Cell. 70, 5, p. 768-784 17 p.

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

  9. Published

    Back to the roots: deep view into the evolutionary history of ADP-ribosylation opened by the DNA-targeting toxin-antitoxin module DarTG

    Harms, A. & Gerdes, K., 15 Dec 2016, In: Molecular Cell. 64, 6, p. 1020-1021 2 p.

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

  10. Published

    Adenylylation of gyrase and topo IV by FicT toxins disrupts bacterial DNA topology

    Harms, A., Stanger, F. V., Scheu, P. D., de Jong, I. G., Goepfert, A., Glatter, T., Gerdes, K., Schirmer, T. & Dehio, C., 2015, In: Cell Reports. 12, 9, p. 1497-1507 11 p.

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

  11. Published

    Mechanisms of bacterial persistence during stress and antibiotic exposure

    Harms, A., Maisonneuve, E. & Gerdes, K., 2016, In: Science. 354, 6318, 10 p., aaf4268.

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

  12. Published

    Prophages and growth dynamics confound experimental results with antibiotic-tolerant persister cells

    Harms, A., Fino, C., Sørensen, Michael Askvad, Semsey, S. & Gerdes, K., 12 Dec 2017, In: mBio. 8, 6, 18 p., e01964-17.

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

  13. Published

    [Pregnancy within the uterine scar of a prior Caesarean section].

    Hartwell, D., Hoffmann, Eva, Krebs, Lone, Langhoff-Roos, J. & Petersen, K., Aug 2010, In: Ugeskrift for Laeger.

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

  14. Published

    Examination of bacterial growth rate during host infection and its importance for antimicrobial treatment

    Haugan, M. S., 2019, Department of Biology, Faculty of Science, University of Copenhagen.

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

  15. Published

    Chromosome replication as a measure of bacterial growth rate during Escherichia coli infection in the mouse peritonitis model

    Haugan, M. S., Charbon, Godefroid, Frimodt-Møller, N. & Løbner-Olesen, Anders, 1 Dec 2018, In: Scientific Reports. 8, p. 1-13 14961.

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

  16. Published

    Growth Rate of Escherichia coli During Human Urinary Tract Infection: Implications for Antibiotic Effect

    Haugan, M. S., Hertz, F. B., Charbon, Godefroid, Sahin, B., Løbner-Olesen, Anders & Frimodt-Møller, N., 2019, In: Antibiotics. 8, 3, 12 p., 92.

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

  17. Published

    Comparative activity of ceftriaxone, ciprofloxacin and gentamicin as a function of bacterial growth rate probed by Escherichia coli chromosome replication in the mouse peritonitis model

    Haugan, M. S., Løbner-Olesen, Anders & Frimodt-Møller, N., 2019, In: Antimicrobial Agents and Chemotherapy. 63, 2, 13 p., e-02133-18.

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

  18. Published

    First experimental evidence for the presence of a CRISPR toxin in Sulfolobus

    He, F., Chen, L. & Peng, Xu, 2014, In: Journal of Molecular Biology. 426, 22, p. 3683-3688 6 p.

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

  19. Published

    CRISPR-Cas type I-A Cascade complex couples viral infection surveillance to host transcriptional regulation in the dependence of Csa3b

    He, F., Vestergaard, G. A., Peng, W., She, Q. & Peng, Xu, 2017, In: Nucleic Acids Research. 45, 4, p. 1902-1913 12 p.

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

  20. Published

    Anti-CRISPR proteins encoded by archaeal lytic viruses inhibit subtype I-D immunity

    He, F., Bhoobalan, Yuvaraj, Van, L. B., Kjeldsen, A. L., Dedola, M., Makarova, K. S., Koonin, E. V., Brodersen, D. E. & Peng, Xu, 2018, In: Nature Microbiology. 3, 4, p. 461-469 9 p.

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

  21. Published

    Regulation of the Anti-Viral Immune System CRISPR in Sulfolobus and Development of a Genetic Tool for the Linear Sulfolobus Rudivirus SIRV2

    He, F., 2015, Department of Biology, Faculty of Science, University of Copenhagen. 101 p.

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

  22. Published

    Four weeks one-leg training and high fat diet does not alter PPAR alpha protein or mRNA expression in human skeletal muscle

    Helge, Jørn Wulff, Bentley, D., Schjerling, Peter, Willer, M., Gibala, M. J., Franch, J., Tapia-Laliena, M. A., Daugaard, J. R. & Andersen, J. L., 2007, In: European Journal of Applied Physiology. 101, 1, p. 105-114 9 p.

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

  23. Published

    Proteome-wide analysis of lysine acetylation suggests its broad regulatory scope in Saccharomyces cerevisiae

    Henriksen, P., Wagner, S. A., Weinert, B. T., Sharma, S., Bacinskaja, G., Rehman, M., Juffer, A. H., Walther, T. C., Lisby, Michael & Choudhary, Chunaram, 2012, In: Molecular & Cellular Proteomics. 11, 11, p. 1510-1522 13 p.

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

  24. Published

    Effects of Antibiotics on the Intestinal Microbiota of Mice

    Hertz, F. B., Budding, A. E., van der Lugt-Degen, M., Savelkoul, P. H., Løbner-Olesen, Anders & Frimodt-Møller, N., 2020, In: Antibiotics. 9, 4, 11 p., 191.

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

  25. Published

    Antibiotic selection of Escherichia coli sequence type 131 in a mouse intestinal colonization model

    Hertz, F. B., Løbner-Olesen, Anders & Frimodt-Møller, N., 2014, In: Antimicrobial Agents and Chemotherapy. 58, 10, p. 6139-6144 6 p.

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

  26. Published

    "Population structure of drug-susceptible, -resistant and ESBL-producing Escherichia coli from community-acquired urinary tract infections"

    Hertz, F. B., Nielsen, J. B., Schønning, Kristian, Littauer, P., Knudsen, J. D., Løbner-Olesen, Anders & Frimodt-Møller, N., 11 Apr 2016, In: BMC Microbiology. 16, 6 p., 63.

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

  27. Published

    Epidemiological factors associated with ESBL- and non ESBL-producing E. coli causing urinary tract infection in general practice

    Hertz, F. B., Schønning, K., Rasmussen, S. C., Littauer, P., Knudsen, J. D., Løbner-Olesen, Anders & Frimodt-Møller, N., 2016, In: Infectious Diseases. 48, 3, p. 241-245 5 p.

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

  28. Published

    The UCSC Genome Browser Database: update 2006.

    Hinrichs, A. S., Karolchik, D., Baertsch, R., Barber, G. P., Bejerano, G., Clawson, H., Diekhans, M., Furey, T. S., Harte, R. A., Hsu, F., Hillman-Jackson, J., Kuhn, R. M., Pedersen, J. S., Pohl, A., Raney, B. J., Rosenbloom, K. R., Siepel, A., Smith, K. E., Sugnet, C. W., Sultan-Qurraie, A. & 7 others, Thomas, D. J., Trumbower, H., Weber, R. J., Weirauch, M., Zweig, A. S., Haussler, D. & Kent, W. J., 2006, In: Nucleic Acids Research. 34, Database issue, p. D590-8

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

  29. Published

    Autophagic components contribute to hypersensitive cell death in Arabidopsis

    Hofius, D., Schultz-Larsen, T., Joensen, J., Tsitsigiannis, D. I., Petersen, N. H. T., Mattsson, O., Jørgensen, L. B., Jones, J. D. G., Mundy, J. & Petersen, Morten, 2009, In: Cell. 137, 4, p. 773-83 10 p.

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

  30. Published

    Self-consuming innate immunity in Arabidopsis

    Hofius, D., Mundy, J. & Petersen, Morten, 2009, In: Autophagy. 5, 8, p. 1206-7 1 p.

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

  31. Published

    Role of autophagy in disease resistance and hypersensitive response-associated cell death

    Hofius, D., Munch, D., Bressendorff, Simon, Mundy, J. & Petersen, Morten, 2011, In: Cell Death and Differentiation. 18, 8, p. 1257-1262 6 p.

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

  32. Published

    Inducible cell death in plant immunity.

    Hofius, D., Tsitsigiannis, D. I., Jones, J. D. G. & Mundy, J., 2006, In: Seminars in Cancer Biology. 17, 2, p. 166-87 21 p.

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

  33. Published

    The genome of Burkholderia cenocepacia J2315, an epidemic pathogen of cystic fibrosis patients

    Holden, M. T. G., Seth-Smith, H. M. B., Crossman, L. C., Sebaihia, M., Bentley, S. D., Cerdeño-Tárraga, A. M., Thomson, N. R., Bason, N., Quail, M. A., Sharp, S., Cherevach, I., Churcher, C., Goodhead, I., Hauser, H., Holroyd, N., Mungall, K., Scott, P., Walker, D., White, B., Rose, H. & 12 others, Iversen, P., Mil-Homens, D., Rocha, E. P. C., Fialho, A. M., Baldwin, A., Dowson, C., Barrell, B. G., Govan, J. R., Vandamme, P., Hart, C. A., Mahenthiralingam, E. & Parkhill, J., 2009, In: Journal of Bacteriology. 191, 1, p. 261-77 16 p.

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

  34. Published

    Meiosis and SUMO

    Holm, L. R., 2014, Department of Biology, Faculty of Science, University of Copenhagen. 170 p.

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

  35. Published

    New romance between RNA degradation pathways: Mmi1 and RNAi meet on heterochromatic islands

    Holm, L. R. & Thon, Genevieve, 2012, In: E M B O Journal. 31, p. 2242 - 2243 2 p.

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

  36. Published

    Replication: DNA Building Block Synthesis On Demand

    Holmberg, Christian & Nielsen, Olaf, 2012, In: Current Biology. 22, 8, p. R271-R272 2 p.

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

  37. Published

    Truncated glucagon-like peptide I, an insulin-releasing hormone from the distal gut

    Holst, Jens Juul, Ørskov, Cathrine, Nielsen, Olaf & Schwartz, Thue W., 1987, In: F E B S Letters. 211, 2, p. 169-74 6 p.

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

  38. Published

    Configuration-dependent Presentation of Multivalent IL-15: IL-15Rα enhances the antigen-specific T cell response and anti-tumor immunity

    Hong, E., Usiskin, I. M., Bergamaschi, C., Hanlon, D. J., Edelson, R. L., Justesen, S., Pavlakis, G. N., Flavell, R. A. & Fahmy, T. M., 22 Apr 2016, In: Journal of Biological Chemistry. 291, 17, p. 8931-8950 20 p.

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

  39. Published

    Dissection of the functional domains of an archaeal holliday junction helicase

    Hong, Y., Chu, M., Li, Y., Ni, J., Sheng, D., Hou, G., She, Q. & Shen, Y., 2012, In: D N A Repair. 11, 2, p. 102-111 10 p.

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

  40. Published

    Type II and type IV toxin-antitoxin systems show different evolutionary patterns in the global Klebsiella pneumoniae population

    Horesh, G., Fino, C., Harms, A., Dorman, M. J., Parts, L., Gerdes, K., Heinz, E. & Thomson, N. R., 2020, In: Nucleic Acids Research. 48, 8, p. 4357-4370 14 p.

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

  41. Published

    SLING: a tool to search for linked genes in bacterial datasets

    Horesh, G., Harms, A., Fino, C., Parts, L., Gerdes, K., Heinz, E. & Thomson, N. R., 2018, In: Nucleic Acids Research. 46, 21, p. 1-10 e128.

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

  42. Published

    A novel esterase from Saccharomyces carlsbergensis, a possible function for the yeast TIP1 gene

    Horsted, M. W., Dey, E. S., Holmberg, Steen & Kielland-Brandt, M. C., 1998, In: Yeast. 14, 9, p. 793-803 10 p.

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

  43. Published

    An archaeal protein evolutionarily conserved in prokaryotes is a zinc-dependent metalloprotease

    Hu, Y., Peng, N., Han, W., Mei, Y., Chen, Z., Feng, X., Liang, Y. X. & She, Q., 2012, In: Bioscience Reports. 32, p. 609-618 10 p.

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

  44. Published

    Efficient 5 '-3 ' DNA end resection by HerA and NurA is essential for cell viability in the crenarchaeon Sulfolobus islandicus

    Huang, Q., Liu, L., Liu, J., Ni, J., She, Q. & Shen, Y., 2015, In: B M C Molecular Biology. 16, 14 p., 2.

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

  45. Published

    Genetic analysis of the Holliday junction resolvases Hje and Hjc in Sulfolobus islandicus

    Huang, Q., Li, Y., Zeng, C., Song, T., Yan, Z., Ni, J., She, Q. & Shen, Y., 2015, In: Extremophiles. 19, 2, p. 505-514 10 p.

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

  46. Published

    Virology: Independent virus development outside a host

    Häring, M., Vestergaard, G. A., Rachel, R., Chen, L., Garrett, Roger Antony & Prangishvili, D., 2005, In: Nature. 436, 7054, p. 1101-1102

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

  47. Published

    Structure and genome organization of AFV2, a novel archaeal lipothrixvirus with unusual terminal and core structures

    Häring, M., Vestergaard, G. A., Brügger, K., Rachel, R., Garrett, Roger Antony & Prangishvili, D., 2005, In: Journal of Bacteriology. 187, 11, p. 3855-8 4 p.

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

  48. Published

    Morphology and genome organisation of the virus PSV of the hyperthermophilic archaeal genera Pyrobaculum and Thermoproteus: A novel virus family, the Globuloviridae

    Häring , M., Peng, Xu & Brugger K., Rachel R., Stetter K.O., Garrett R.A.,Prangishvili D., B. K. ,. R. R. ,. S. K. O. ,. G. R. A. ,. D., 2004, In: Virology.

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

  49. Published

    Functional and evolutionary analysis of alternatively spliced genes is consistent with an early eukaryotic origin of alternative splicing.

    Irimia, M., Rukov, J. L., Penny, D. & Roy, S. W., 2007, In: BMC Evolutionary Biology. 7, p. 188

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

  50. Published

    Evolution of alternative splicing regulation: changes in predicted exonic splicing regulators are not associated with changes in alternative splicing levels in primates

    Irimia, M., Rukov, J. L. & Roy, S. W., 2009, In: PLoS ONE. 4, 6, p. e5800

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

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