Functional Genomics

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  1. 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

  2. Published

    Choreography of recombination proteins during the DNA damage response

    Lisby, Michael & Rothstein, R., 2009, In: DNA Repair. 8, 9, p. 1068-76 8 p.

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

  3. Published

    Choreography of the DNA damage response: spatiotemporal relationships among checkpoint and repair proteins

    Lisby, Michael, Barlow, J. H., Burgess, R. C. & Rothstein, R., 17 Sep 2004, In: Cell. 118, 6, p. 699-713 15 p.

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

  4. Published

    Chromosome partitioning in Escherichia coli

    Løbner-Olesen, Anders & Kuempel, P. L., Dec 1992, In: Journal of Bacteriology. 174, 24, p. 7883-9 7 p.

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

  5. 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

  6. Published

    Chromosome-scale assembly and whole-genome sequencing of 266 giant panda roundworms provide insights into their evolution, adaptation and potential drug targets

    Han, L., Lan, T., Li, D., Li, H., Deng, L., Peng, Z., He, S., Zhou, Y., Han, R., Li, L., Lu, Y., Lu, H., Wang, Q., Yang, S., Zhu, Y., Huang, Y., Cheng, X., Yu, J., Wang, Y., Sun, H. & 8 others, Chai, H., Yang, H., Xu, X., Lisby, Michael, Liu, Q., Kristiansen, Karsten, Liu, Huan & Hou, Z., 2022, In: Molecular Ecology Resources. 22, 2, p. 768-785 18 p.

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

  7. Published

    Chromosome-scale genomes of commercial timber trees (Ochroma pyramidale, Mesua ferrea, and Tectona grandis)

    Sahu, S. K., Liu, M., Chen, Y., Gui, J., Fang, D., Chen, X., Yang, T., He, C., Cheng, L., Yang, J., Sahu, D. N., Li, L., Wang, H., Mu, W., Wei, J., Liu, J., Zhao, Y., Zhang, S., Lisby, M., Liu, X. & 4 others, Xu, X., Li, L., Wang, S. & Liu, Huan, 2023, In: Scientific Data. 10, 1, 13 p., 512.

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

  8. Published

    Chromosome-scale genomes of commercially important mahoganies, Swietenia macrophylla and Khaya senegalensis

    Sahu, S. K., Liu, M., Wang, G., Chen, Y., Li, R., Fang, D., Sahu, D. N., Mu, W., Wei, J., Liu, J., Zhao, Y., Zhang, S., Lisby, Michael, Liu, X., Xu, X., Li, L., Wang, S., Liu, Huan & He, C., 2023, In: Scientific Data. 10, 9 p., 832.

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

  9. Published

    Chromosome-scale genomes provide new insights into subspecies divergence and evolutionary characteristics of the giant panda

    Guang, X., Lan, T., Wan, Q. H., Huang, Y., Li, H., Zhang, M., Li, R., Zhang, Z., Lei, Y., Zhang, L., Zhang, H., Li, D., Li, X., Li, H., Xu, Y., Qiao, M., Wu, D., Tang, K., Zhao, P., Lin, J-Q. & 11 others, Sahu, S. K., Liang, Q., Jiang, W., Zhang, D., Xu, X., Liu, X., Lisby, Michael, Yang, H., Kristiansen, Karsten, Liu, Huan & Fang, S., 2021, In: Science Bulletin. 66, 19, p. 2002-2013 12 p.

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

  10. Published

    Ciprofloxacin intercalated in fluorohectorite clay: identical pure drug activity and toxicity with higher adsorption and controlled release rate

    dos Santos, E. C., Rozynek, Z., Hansen, E. L., Hartmann-Petersen, Rasmus, Klitgaard, R. N., Løbner-Olesen, Anders, Michels, L., Mikkelsen, A., Plivelic, Nunes Bordallo, Heloisa & Fossum, J. O., 17 May 2017, In: R S C Advances. 7, 43, p. 26537-26545

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

  11. Published

    Cloning-free genome alterations in Saccharomyces cerevisiae using adaptamer-mediated PCR

    Reid, R. J. D., Lisby, Michael & Rothstein, R., 2002, In: Methods in Enzymology. 350, p. 258-77 20 p.

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

  12. Published

    Cmr1 enables efficient RNA and DNA interference of a III-B CRISPR–Cas system by binding to target RNA and crRNA

    Li, Y., Zhang, Y., Lin, Jinzhong, Pan, S., Han, W., Peng, N., Liang, Y. X. & She, Q., 2 Nov 2017, In: Nucleic Acids Research. 45, 19, p. 11305-11314 10 p., gkx791.

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

  13. Published

    Cmr1/WDR76 defines a nuclear genotoxic stress body linking genome integrity and protein quality control

    Gallina, I., S.Colding-Christensen, Camilla, Henriksen, P., Beli, P., Nakamura, K., Offman, J., Barfred, D. P., Pinela da Silva, S. C., Hoffmann, E., Groth, Anja, Choudhary, C. & Lisby, Michael, 2015, In: Nature Communications. 6, 16 p., 6533.

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

  14. Published

    Cmr3 regulates the suppression on cyclic oligoadenylate synthesis by tag complementarity in a Type III-B CRISPR-Cas system

    Guo, T., Zheng, F., Zeng, Z., Yang, Y., Li, Q., She, Q. & Han, W., 2019, In: RNA Biology. 16, 10, p. 1513-1520

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

  15. 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

  16. Published

    Colocalization of multiple DNA double-strand breaks at a single Rad52 repair centre

    Lisby, Michael, Mortensen, U. H. & Rothstein, R., Jun 2003, In: Nature Cell Biology. 5, 6, p. 572-7 6 p.

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

  17. Published

    Common Chromosomal Fragile Sites - Conserved Failure Stories

    Voutsinos, Vasileios, Munk, S. H. N. & Østergaard, Vibe Hallundbæk, 2018, In: Genes. 9, 12, p. 1-16 580.

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

  18. Published

    Comparative Analyses of 3,654 Plastid Genomes Unravel Insights Into Evolutionary Dynamics and Phylogenetic Discordance of Green Plants

    Yang, T., Sahu, S. K., Yang, L., Liu, Y., Mu, W., Liu, X., Strube, M. L., Liu, Huan & Zhong, B., 2022, In: Frontiers in Plant Science. 13, 13 p., 808156.

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

  19. Published

    Comparative Effectiveness of Low-Volume Time-Efficient Resistance Training Versus Endurance Training in Patients With Heart Failure

    Munch, G. W., Rosenmeier, J. B., Petersen, Morten, Rinnov, A. R., Iepsen, U. W., Pedersen, Bente Klarlund & Mortensen, S. P., 2018, In: Journal of Cardiopulmonary Rehabilitation and Prevention. 38, 3, p. 175-181 7 p.

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

  20. Published

    Comparative Proteomics and Secretomics Revealed Virulence and Antibiotic Resistance-Associated Factors in Vibrio parahaemolyticus Recovered From Commonly Consumed Aquatic Products

    Zhu, Z., Yang, L., Yu, P., Wang, Y., Peng, Xu & Chen, L., 2020, In: Frontiers in Microbiology. 11, 31 p., 1453.

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

  21. 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

  22. Published

    Comparative genomics for non-O1/O139 Vibrio cholerae isolates recovered from the Yangtze River Estuary versus V. cholerae representative isolates from serogroup O1

    Gong, L., Yu, P., Zheng, H., Gu, W., He, W., Tang, Y., Wang, Y., Dong, Y., Peng, Xu, She, Q., Xie, L. & Chen, L., 2019, In: Molecular Genetics and Genomics. 294, 2, p. 417-430

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

  23. Published

    Comparative metagenomics of eight geographically remote terrestrial hot springs

    Menzel, P., Islin, S. R., Rike, A. G., Lin, L., Zhang, Q., Contursi, P., Moracci, M., Kristjansson, J. K., Bolduc, B., Gavrilov, S., Ravin, N., Mardanov, A., Bonch-Osmolovskaya, E., Young, M., Krogh, Anders & Peng, Xu, 2015, In: Microbial Ecology. 70, 2, p. 411-424 14 p.

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

  24. Published

    Comparative proteomics and secretomics revealed virulence, and coresistance-related factors in non O1/O139 Vibrio cholerae recovered from 16 species of consumable aquatic animals

    Shan, X., Fu, J., Li, X., Peng, Xu & Chen, L., 2022, In: Journal of Proteomics. 251, 15 p., 104408.

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

  25. Published

    Comparative sequence analysis of cis elements present in Glycine max L. leghemoglobin lba and lbc3 genes

    She, Q., Sandal, N. N., Stougaard, J. & Marcker, K. A., 1993, In: Plant Molecular Biology. 22, 5, p. 931-5 4 p.

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

  26. Published

    Comparative transcriptomic analyses of chlorogenic acid and luteolosides biosynthesis pathways at different flowering stages of diploid and tetraploid Lonicera japonica

    Wang, H., Li, Y., Wang, S., Kong, D., Sahu, S. K., Bai, M., Li, H., Li, L., Xu, Y., Liang, H., Liu, Huan & Wu, H., 2020, In: PeerJ. 8, 24 p., e8690.

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

  27. Published

    Compartment-specific aggregases direct distinct nuclear and cytoplasmic aggregate deposition

    Miller, S. B., Ho, C., Winkler, J., Khokhrina, M., Neuner, A., Mohamed, M. Y., Guilbride, D. L., Richter, K., Lisby, Michael, Schiebel, E., Mogk, A. & Bukau, B., 2015, In: E M B O Journal. 34, 6, p. 778-797 20 p.

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

  28. Published

    Compensatory role for Rad52 during recombinational repair in Ustilago maydis.

    Kojic, M., Mao, N., Zhou, Q., Lisby, Michael & Holloman, W. K., 2008, In: Molecular Microbiology. 67, 5, p. 1156-68 12 p.

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

  29. 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

  30. Published

    Comprehensive profiling of the fission yeast transcription start site activity during stress and media response

    Thodberg, Malte, Thieffry, A., Lange, Jette Bornholdt, Boyd, M., Holmberg, Christian, Azad, A., Workman, C. T., Chen, Y., Ekwall, K., Nielsen, Olaf & Sandelin, Albin Gustav, 28 Feb 2019, In: Nucleic Acids Research. 47, 4, p. 1671-1691 21 p.

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

  31. Published

    Comprehensive search for accessory proteins encoded with archaeal and bacterial type III CRISPR-cas gene cassettes reveals 39 new cas gene families

    Shah, S. A., Alkhnbashi, O. S., Behler, J., Han, W., She, Q., Hess, W. R., Garrett, Roger Antony & Backofen, R., 2019, In: RNA Biology. 16, 4, p. 530-542 13 p.

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

  32. Published

    Computational Analysis of MicroRNAs

    Jacobsen, A. M. B., 2009, Museum Tusculanum.

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

  33. Published

    Computational method for discovery of estrogen responsive genes.

    Tang, S., Tan, S. L., Ramadoss, S. K., Kumar, A. P., Tang, M. E. & Bajic, V. B., 2004, In: Nucleic Acids Research. 32, 21, p. 6212-7 5 p.

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

  34. Published

    Computational methods for exploration and prediction of regulatory elements in RNA Polymerase II promoters

    Tang, M. E., 2009, Biologisk Institut: Museum Tusculanum. 127 p.

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

  35. Published

    Concerted action of the Ubiquitin-Fusion Degradation Protein 1 (Ufd1) and Sumo-Targeted Ubiquitin Ligases (STUbLs) in the DNA-damage response

    Køhler, J. B., Jørgensen, M. L. M., Beinoraite, G., Thorsen, M. & Thon, Genevieve, 2013, In: P L o S One. 8, 11, 15 p., e80442.

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

  36. Published

    Conditional E2F1 activation in transgenic mice causes testicular atrophy and dysplasia mimicking human CIS.

    Agger, K., Santoni Rugiu, Eric, Holmberg, Christian, Karlström, O. & Helin, K., 2005, In: Oncogene. 24, 5, p. 780-9 9 p.

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

  37. 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

  38. Published

    Conservation of the Type IV secretion system throughout Wolbachia evolution

    Pichon, S., Bouchon, D., Cordaux, R., Chen, L., Garrett, Roger Antony & Grève, P., 2009, In: Biochemical and Biophysical Research Communications. 385, 4, p. 557-62 5 p.

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

  39. 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

  40. Published

    Constitutive SOCS-3 expression protects T-cell lymphoma against growth inhibition by IFNalpha

    Brender, C., Lovato, P., Sommer, V. H., Woetmann, Anders , Mathiesen, A., Geisler, Carsten, Wasik, M. & Ødum, Niels, 2005, In: Leukemia. 19, 2, p. 209-13 4 p.

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

  41. Published

    Constitutive STAT3 activation in intestinal T cells from patients with Crohn's disease

    Lovato, P., Brender, C., Agnholt, J., Kelsen, J., Kaltoft, K., Svejgaard, A., Eriksen, K. W., Woetmann, Anders & Ødum, Niels, 2003, In: Journal of Biological Chemistry. 278, 19, p. 16777-81 4 p.

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

  42. Published

    Construction and characterization of three protein-targeting expression system in Lactobacillus casei

    Lin, J., Zou, Y., Ma, C., Liang, Y., Ge, X., Chen, Z. & She, Q., 2016, In: F E M S Microbiology Letters. 363, 7, 8 p.

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

  43. Published

    Control of bacterial chromosome replication by non-coding regions outside the origin

    Frimodt-Møller, Jakob, Charbon, Godefroid & Løbner-Olesen, Anders, 2017, In: Current Genetics. 63, 4, p. 607-611 5 p.

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

  44. Published

    Control of specific gene expression by gibberellin and brassinosteroid

    Bouquin, T., Meier, C., Foster, R., Nielsen, Mads Eggert & Mundy, J., 2001, In: Plant Physiology.

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

  45. Published

    Control regions for chromosome replication are conserved with respect to sequence and location among Escherichia coli strains

    Frimodt-Møller, Jakob, Charbon, Godefroid, Krogfelt, K. A. & Løbner-Olesen, Anders, 2015, In: Frontiers in Microbiology. 6, 15 p., 1011.

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

  46. Published

    Coping with Reactive Oxygen Species to Ensure Genome Stability in Escherichia coli

    Mendoza-Chamizo, B., Løbner-Olesen, Anders & Charbon, Godefroid, 2018, In: Genes. 9, 11, 565.

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

  47. Published

    Correction: The PCNA interaction protein box sequence in Rad54 is an integral part of its ATPase domain and is required for efficient DNA repair and recombination (PLoS ONE (2013) 8, 12 (e82630) DOI: 10.1371/journal.pone.0082630)

    Burgess, R. C., Sebesta, M., Sisakova, A., Marini, V. P. & Lisby, Michael, 24 Jun 2014, In: PLoS ONE. 9, 6, e101095.

    Research output: Contribution to journal › Comment/debate › Research › peer-review

  48. Published

    Correlated transcriptional responses provide insights into the synergy mechanisms of the furazolidone, vancomycin, and sodium deoxycholate triple combination in escherichia coli

    Olivera, Catrina Diane Peralta, Cox, M. P., Rowlands, G. J. & Rakonjac, J., 2021, In: mSphere. 6, 5, 14 p., e00627-21.

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

  49. Published

    Countermeasures to survive excessive chromosome replication in Escherichia coli

    Charbon, Godefroid, Riber, Leise & Løbner-Olesen, Anders, 2018, In: Current Genetics. 64, 1, p. 71-79 9 p.

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

  50. Published

    Counting Replication Origins to Measure Growth of Pathogens

    Charbon, Godefroid, Haugan, M. S., Frimodt-Møller, N. & Løbner-Olesen, Anders, 2020, In: Antibiotics. 9, 5, 5 p., 239.

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

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