The NNF Center for Protein Research

  1. 2012
  2. Published

    Evaluation of candidate biomarkers to predict cancer cell sensitivity or resistance to PARP-1 inhibitor treatment

    Oplustilova, L., Wolanin, K., Bartkova, J., Lukas, Jiri, Bartek, J., Lau, A., O'Connor, M. J., Mistrik, M., Korinkova, G., Simkova, D., Bouchal, J. & Lenobel, R., 15 Oct 2012, In : Cell Cycle. 11, 20, p. 3837-3850 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  3. Published

    Molecular characterization of oxysterol binding to the Epstein-Barr virus-induced gene 2 (GPR183)

    Benned-Jensen, T., Norn, Christoffer, Laurent, S., Madsen, C. M., Larsen, H. M., Arfelt, K. N., Wolf, R. M., Frimurer, Thomas Michael, Sailer, A. W. & Rosenkilde, Mette, 12 Oct 2012, In : The Journal of Biological Chemistry. 287, 42, p. 35470-83 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  4. Published

    Loss of CBL E3-ligase activity in B-lineage childhood acute lymphoblastic leukaemia

    Martinelli, S., Checquolo, S., Consoli, F., Stellacci, E., Rossi, C., Silvano, M., Franciosa, Giulia, Flex, E., Cossu, C., De Luca, A., Foà, R., Cazzaniga, G., Biondi, A., Screpanti, I. & Tartaglia, M., 1 Oct 2012, In : British Journal of Haematology. 159, 1, p. 115-119 5 p.

    Research output: Contribution to journalLetterResearchpeer-review

  5. Published

    Melanin concentrating hormone receptor 1 (MCHR1) antagonists - Still a viable approach for obesity treatment?

    Högberg, T., Frimurer, Thomas Michael & Sasmal, P. K., 1 Oct 2012, In : Bioorganic & Medicinal Chemistry Letters. 22, 19, p. 6039-6047 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  6. Published

    Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass

    Povlsen, L. K., Beli, P., Wagner, S. A., Poulsen, S. L., Sylvestersen, K. B., Poulsen, J. W., Nielsen, Michael Lund, Bekker-Jensen, Simon Holst, Mailand, Niels & Choudhary, Chuna Ram, Oct 2012, In : Nature Cell Biology. 14, 10, p. 1089-98 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  7. Published

    Ubiquitin and the DNA damage response: a new handle on histones

    Bekker-Jensen, Simon Holst & Mailand, Niels, 1 Sep 2012, In : Cell Cycle. 11, 17, p. 3153 1 p.

    Research output: Contribution to journalComment/debateResearchpeer-review

  8. Published

    Modulation of constitutive activity and signaling bias of the ghrelin receptor by conformational constraint in the second extracellular loop

    Mokrosinski, J., Frimurer, Thomas Michael, Sivertsen, B., Schwartz, Thue W. & Holst, Birgitte, Sep 2012, In : Journal of Biological Chemistry. 287, p. 33488-33502 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  9. Published

    5'-Cytosine-phosphoguanine (CpG) methylation impacts the activity of natural and engineered meganucleases

    Valton, J., Daboussi, F., Leduc, S., Molina, Rafael, Redondo, P., Macmaster, R., Montoya, Guillermo & Duchateau, P., 31 Aug 2012, In : The Journal of Biological Chemistry. 287, 36, p. 30139-50 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  10. Published

    Proteomic analysis of lysine acetylation sites in rat tissues reveals organ specificity and subcellular patterns

    Lundby, Alicia, Hansen, K. L., Weinert, B. T., Breinholt Bekker-Jensen, D., Secher, A., Skovgaard, T., Kelstrup, C., Dmytriyev, A., Choudhary, Chuna Ram, Lundby, C. & Olsen, Jesper Velgaard, 30 Aug 2012, In : Cell Reports. 2, 2, p. 419-431 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  11. Published

    SOCS1 cooperates with FLT3-ITD in the development of myeloproliferative disease by promoting the escape from external cytokine control

    Reddy, P. N. G., Serve, H., Brandts, C. H., Sargin, B., Choudhary, Chuna Ram, Müller-Tidow, C., Berdel, W. E., Stein, S. & Grez, M., 23 Aug 2012, In : Blood. 120, 8, p. 1691-1702 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  12. Published

    TRIP12 and UBR5 Suppress Spreading of Chromatin Ubiquitylation at Damaged Chromosomes

    Gudjónsson, Thorkell, Altmeyer, M. F., Savic, V., Toledo Lazaro, Luis Ignacio, Dinant, C., Grøfte, M., Bartkova, J., Poulsen, M., Oka, Y., Bekker-Jensen, Simon Holst, Mailand, Niels, Neumann, B., Heriche, J., Shearer, R., Saunders, D., Bartek, J., Lukas, Jiri & Lukas, Claudia, 17 Aug 2012, In : Cell. 150, 4, p. 697-709 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  13. Published

    The Rab-GTPase-activating protein TBC1D1 regulates skeletal muscle glucose metabolism

    Szekeres, F., Chadt, A., Tom, R. Z., Deshmukh, Atul Shahaji, Chibalin, A. V., Björnholm, M., Al-Hasani, H. & Zierath, Juleen R, 15 Aug 2012, In : American Journal of Physiology: Endocrinology and Metabolism. 303, 4, p. E524-33

    Research output: Contribution to journalJournal articleResearchpeer-review

  14. Published

    α4βδ GABA receptors are high-affinity targets for γ-hydroxybutyric acid (GHB)

    Absalom, N., Karim, N., Eghorn, L. F., Villumsen, I. S., Bay, T., Bräuner-Osborne, Hans, Frølund, Bente, Clausen, Rasmus Prætorius, Olsen, Jesper Velgaard, Knudsen, Gitte Moos, Chebib, M. & Wellendorph, Petrine, 14 Aug 2012, In : Proceedings of the National Academy of Sciences USA (PNAS). 109, 33, p. 13404-13409 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  15. Published

    Loss of ATM kinase activity leads to embryonic lethality in mice

    Daniel, J. A., Pellegrini, M., Filsuf, D., Nussenzweig, A., Belkina, N. V., Feigenbaum, L., Lee, B., Sleckman, B. P., You, Z., Guo, Z. & Paull, T. T., 6 Aug 2012, In : Journal of Cell Biology. 198, 3, p. 295-304 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  16. Published

    Non-specific protein-DNA interactions control I-CreI target binding and cleavage

    Molina, Rafael, Redondo, P., Stella, Stefano, Marenchino, M., D'Abramo, M., Gervasio, F. L., Charles Epinat, J., Valton, J., Grizot, S., Duchateau, P., Prieto, J. & Montoya, Guillermo, 1 Aug 2012, In : Nucleic Acids Research. 40, 14, p. 6936-6945 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  17. Published

    LEDGF (p75) promotes DNA-end resection and homologous recombination

    Daugaard, M., Baude, A., Fugger, K., Povlsen, L. K., Beck, H., Sørensen, Claus Storgaard, Petersen, N. H. T., Sorensen, P. H. B., Lukas, Claudia, Bartek, J., Lukas, Jiri, Rohde, M. & Jaattela, Marja, Aug 2012, In : Nature Structural & Molecular Biology. 19, 8, p. 803-810 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  18. Published

    Inactivation of barley limit dextrinase inhibitor by thioredoxin-catalysed disulfide reduction

    Jensen, J. M., Hägglund, Per Mårten, Christensen, H. E. M. & Svensson, B., 30 Jul 2012, In : FEBS letters. 586, 16, p. 2479-2482 4 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  19. Published

    Thermoascus aurantiacus is a promising source of enzymes for biomass deconstruction under thermophilic conditions

    McClendon, S. D., Batth, Tanveer Singh, Petzold, C. J., Adams, P. D., Simmons, B. A. & Singer, S. W., 28 Jul 2012, In : Biotechnology for Biofuels. 5, 1, p. 54

    Research output: Contribution to journalJournal articleResearchpeer-review

  20. Published

    Covalent attachment of antagonists to the a7 nicotinic acetylcholine receptor: synthesis and reactivity of substituted maleimides

    Ambrus, J. I., Halliday, J. I., Kanizaj, N., Absalom, N., Harpsøe, Kasper, Balle, T., Chebib, M. & McLeod, M. D., 7 Jul 2012, In : Chemical Communications. 48, 53, p. 6699-6701 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  21. Published

    Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues

    Lundby, Alicia, Secher, A., Lage, K., Nordsborg, Nikolai Baastrup, Dmytriyev, A., Lundby, C. & Olsen, Jesper Velgaard, 6 Jun 2012, In : Nature Communications. 3, p. 1-10 10 p., Article 876.

    Research output: Contribution to journalJournal articleResearchpeer-review

  22. Published

    Multimodel pathway enrichment methods for functional evaluation of expression regulation

    Kirik, U., Cifani, P., Albrekt, A., Lindstedt, M., Heyden, A. & Levander, F., 4 May 2012, In : Journal of Proteome Research. 11, 5, p. 2955-67 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  23. Published

    Protein expression changes in ovarian cancer during the transition from benign to malignant

    Waldemarson, S., Krogh, M., Alaiya, A., Kirik, U., Schedvins, K., Auer, G., Hansson, K. M., Ossola, R., Aebersold, R., Lee, H., Malmström, J. & James, P., 4 May 2012, In : Journal of Proteome Research. 11, 5, p. 2876-89 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  24. Published

    Bioinformatics Training Network (BTN): a community resource for bioinformatics trainers

    Schneider, M. V., Walter, P., Blatter, M., Watson, J., Brazas, M. D., Rother, K., Budd, A., Via, A., van Gelder, C. W. G., Jacob, J., Fernandes, P., Nyrönen, T. H., De Las Rivas, J., Blicher, T., Jimenez, R. C., Loveland, J., McDowall, J., Jones, P., Vaughan, B. W., Lopez, R., Attwood, T. K. & Brooksbank, C., May 2012, In : Briefings in Bioinformatics. 13, 3, p. 383-9 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  25. Published

    Knowledge engineering for health: a new discipline required to bridge the "ICT gap" between research and healthcare

    Beck, T., Gollapudi, S., Brunak, Søren, Graf, N., Lemke, H. U., Dash, D., Buchan, I., Díaz, C., Sanz, F. & Brookes, A. J., May 2012, In : Human Mutation. 33, 5, p. 797-802 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  26. Published

    Reversed binding of a small molecule ligand in homologous chemokine receptors - differential role of extracellular loop 2

    Jensen, Per Claudi, Thiele, S., Steen, A., Elder, A., Kolbeck, R., Ghosh, S., Frimurer, Thomas Michael & Rosenkilde, Mette, May 2012, In : British Journal of Pharmacology. 166, 1, p. 258-75 18 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  27. Published

    Using text-mining techniques in electronic patient records to identify ADRs from medicine use

    Warrer, P., Hansen, E. H., Jensen, Lars Juhl & Aagaard, L., May 2012, In : British Journal of Clinical Pharmacology. 73, 5, p. 674-684 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  28. Published

    Sequencing chromosomal abnormalities reveals neurodevelopmental loci that confer risk across diagnostic boundaries

    Talkowski, M. E., Rosenfeld, J. A., Blumenthal, I., Pillalamarri, V., Chiang, C., Heilbut, A., Ernst, C., Hanscom, C., Rossin, E., Lindgren, A. M., Pereira, S., Ruderfer, D., Kirby, A., Ripke, S., Harris, D. J., Lee, J., Ha, K., Kim, H., Solomon, B. D., Gropman, A. L., Lucente, D., Sims, K., Ohsumi, T. K., Borowsky, M. L., Loranger, S., Quade, B., Hansen, K. L., Miles, J., Wu, B., Shen, Y., Neale, B., Shaffer, L. G., Daly, M. J., Morton, C. C. & Gusella, J. F., 27 Apr 2012, In : Cell. 149, 3, p. 525-37 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  29. Published

    A role for small RNAs in DNA double-strand break repair

    Wei, W., Ba, Z., Wu, Y., Ma, Y., Qi, Y., Gao, M., Danielsen, J. M. R., Yang, Y., Amiard, S. & White, C. I., 30 Mar 2012, In : Cell. 149, 1, p. 101-112 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  30. Published

    Effects of 2 weeks lower limb immobilization and two separate rehabilitation regimens on gastrocnemius muscle protein turnover signaling and normalization genes

    Nedergaard, A., Jespersen, J. G., Pingel, Jessica, Christensen, B., Sroczynski, N., Langberg, Henning, Kjær, Michael & Schjerling, P., 28 Mar 2012, In : BMC Research Notes. 5, 1, p. 166 1 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  31. Published

    Advancing cell biology through proteomics in space and time (PROSPECTS)

    Lamond, A. I., Uhlen, M., Horning, S., Makarov, A., Robinson, C. V., Serrano, L., Hartl, F. U., Baumeister, W., Werenskiold, A. K., Mann, Matthias, Andersen, J. S., Vorm, O., Linial, M. & Aebersold, R., 1 Mar 2012, In : Molecular & Cellular Proteomics. 11, 3, 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  32. Published

    Proteomics for biomedicine: A half-completed journey

    Mann, Matthias, 1 Feb 2012, In : EMBO Molecular Medicine. 4, 2, p. 75-77 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  33. Published

    Androgen receptor signalling in peritubular myoid cells is essential for normal differentiation and function of adult Leydig cells

    Welsh, M., Moffat, L., Belling, Kirstine G, de França, L. R., Segatelli, T. M., Saunders, P. T. K., Sharpe, R. M. & Smith, L. B., Feb 2012, In : International Journal of Andrology. Supplement. 35, 1, p. 25-40 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  34. Published

    Androgen-independent effects of Serenoa repens extract (Prostasan®) on prostatic epithelial cell proliferation and inflammation

    Iglesias Gato, Diego, Carsten, T., Vesterlund, M., Pousette, A., Schoop, R. & Norstedt, G., Feb 2012, In : Phytotherapy Research. 26, 2, p. 259-64 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  35. Published

    Molecular scissors for in situ cellular repair

    Prieto, J., Molina, Rafael & Montoya, Guillermo, 31 Jan 2012, In : Critical Reviews in Biochemistry and Molecular Biology. 47, 3, p. 207-21 15 p.

    Research output: Contribution to journalReviewResearchpeer-review

  36. Published

    The molecular basis of ATM-dependent dimerization of the Mdc1 DNA damage checkpoint mediator.

    Jungmichel, S., Clapperton, J. A., Janette, L., Hari, F. J., Spycher, C., Pavic, L., Li, J., Haire, L. F., Bonalli, M., Larsen, D. H., Lukas, C., Lukas, J., MacMillan, D., Nielsen, Michael Lund, Stucki, M. & Smerdon, S. J., 10 Jan 2012, In : Nucleic Acids Research. 40, 9, p. 4913-4928 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  37. Published

    Self-hydroxylation of the splicing factor lysyl hydroxylase, JMJD6

    Mantri, M., Webby, C. J., Loik, N. D., Hamed, R. B., McDonough, M. A., McCullagh, J. S. O., Schofield, C. J., Wolf, A., Nielsen, Michael Lund & Böttger, A., 1 Jan 2012, In : MedChemComm. 3, 1, p. 80-85 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  38. Published

    The architecture of the BubR1 tetratricopeptide tandem repeat defines a protein motif underlying mitotic checkpoint-kinetochore communication

    Bolanos-Garcia, V. M., Nilsson, Jakob & Blundell, T. L., 1 Jan 2012, In : Bioarchitecture. 2, 1, p. 23-27 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  39. Published

    Modular engineering of L-tyrosine production in Escherichia coli

    Juminaga, D., Baidoo, E. E. K., Redding-Johanson, A. M., Batth, Tanveer Singh, Burd, H., Mukhopadhyay, A., Petzold, C. J. & Keasling, J. D., Jan 2012, In : Applied and Environmental Microbiology. 78, 1, p. 89-98 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  40. Published

    A genome-wide association study of men with symptoms of testicular dysgenesis syndrome and its network biology interpretation

    Dalgaard, M. D., Weinhold, N., Edsgärd, D., Silver, J. D., Pers, T. H., Nielsen, J. E., Jørgensen, N., Juul, Anders, Gerds, Thomas Alexander, Giwercman, A., Giwercman, Y. L., Cohn-Cedermark, G., Virtanen, H. E., Toppari, J., Daugaard, G., Jensen, T. S., Brunak, Søren, Rajpert-De Meyts, E., Skakkebæk, N. E., Leffers, H. & Gupta, R., 2012, In : Journal of Medical Genetics. 49, 1, p. 58-65 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  41. Published

    A new non-catalytic role for ubiquitin ligase RNF8 in unfolding higher-order chromatin structure

    Luijsterburg, M. S., Acs, K., Ackermann, L., Wiegant, W. W., Bekker-Jensen, Simon Holst, Larsen, D. H., Khanna, K. K., van Attikum, H., Mailand, Niels & Dantuma, N. P., 2012, In : E M B O Journal. 31, 11, p. 2511-27 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  42. Published

    A thermophilic ionic liquid-tolerant cellulase cocktail for the production of cellulosic biofuels

    Park, J. I., Steen, E. J., Burd, H., Evans, S. S., Redding-Johnson, A. M., Batth, Tanveer Singh, Benke, P. I., D'haeseleer, P., Sun, N., Sale, K. L., Keasling, J. D., Lee, T. S., Petzold, C. J., Mukhopadhyay, A., Singer, S. W., Simmons, B. A. & Gladden, J. M., 2012, In : PLoS ONE. 7, 5, p. e37010

    Research output: Contribution to journalJournal articleResearchpeer-review

  43. Published

    Addicted to PAR? A closer look at PARP inhibitor sensitivity

    Altmeyer, M., 2012, In : Cell Cycle. 11, 21, p. 3916 1 p.

    Research output: Contribution to journalComment/debateResearchpeer-review

  44. Published

    Cometin is a novel neurotrophic factor that promotes neurite outgrowth and neuroblast migration in vitro and supports survival of spiral ganglion neurons in vivo

    Jørgensen, J. R., Fransson, A., Fjord-Larsen, L., Thompson, L. H., Houchins, J. P., Andrade, N., Torp, M., Kalkkinen, N., Andersson, E., Lindvall, O., Ulfendahl, M., Brunak, Søren, Johansen, T. E. & Wahlberg, L. U., 2012, In : Experimental Neurology. 233, 1, p. 172-81 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  45. Published

    Comprehensive profiling of proteome changes upon sequential deletion of deubiquitylating enzymes

    Poulsen, J. W., Madsen, C. T., Young, C., Kelstrup, C. D., Grell, H. C., Henriksen, P., Jensen, Lars Juhl & Nielsen, Michael Lund, 2012, In : Journal of Proteomics. 75, 13, p. 3886-97 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  46. Published

    Correction to Feasibility of Large-Scale Phosphoproteomics with Higher Energy Collisional Dissociation Fragmentation

    Nagaraj, N., D'Souza, R. C. J., Cox, J., Olsen, Jesper Velgaard & Mann, Matthias, 2012, In : Journal of Proteome Research.

    Research output: Contribution to journalJournal articleResearchpeer-review

  47. Published

    DNA damage-inducible SUMOylation of HERC2 promotes RNF8 binding via a novel SUMO-binding Zinc finger

    Danielsen, J. M. R., Povlsen, L. K., Villumsen, B. H., Streicher, W., Nilsson, Jakob, Wikström, M., Bekker-Jensen, Simon Holst & Mailand, Niels, 2012, In : Journal of Cell Biology. 197, 2, p. 179-87 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  48. Published

    DVC1 (C1orf124) is a DNA damage-targeting p97 adaptor that promotes ubiquitin-dependent responses to replication blocks

    Mosbech, A., Gibbs-Seymour, I., Kagias, K., Thorslund, T., Beli, P., Povlsen, L., Nielsen, Sofie Vincents, Smedegaard, S., Sedgwick, G., Lukas, Claudia, Hartmann-Petersen, Rasmus, Lukas, Jiri, Choudhary, Chuna Ram, Pocock, R. D. J., Bekker-Jensen, Simon Holst & Mailand, Niels, 2012, In : Nature Structural and Molecular Biology. 19, 11, p. 1084-92 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  49. Published

    DistiLD Database: diseases and traits in linkage disequilibrium blocks

    Palleja, A., Horn, H., Eliasson, S. & Jensen, Lars Juhl, 2012, In : Nucleic Acids Research. 40, Database issue, p. D1036-40

    Research output: Contribution to journalJournal articleResearchpeer-review

  50. Published

    Genes adopt non-optimal codon usage to generate cell cycle-dependent oscillations in protein levels

    Frenkel-Morgenstern, M., Danon, T., Christian, T., Igarashi, T., Cohen, L., Hou, Y. & Jensen, Lars Juhl, 2012, In : Molecular Systems Biology. 8, p. 572

    Research output: Contribution to journalJournal articleResearchpeer-review

  51. Published

    Genetic and environmental risk factors in congenital heart disease functionally converge in protein networks driving heart development

    Hansen, K. L., Greenway, S. C., Rosenfeld, J. A., Wakimoto, H., Gorham, J. M., Segrè, A. V., Roberts, A. E., Smoot, L. B., Pu, W. T., C Pereira, A., Mesquita, S. M., Tommerup, Niels, Brunak, Søren, Ballif, B. C., Shaffer, L. G., Donahoe, P. K., Daly, M. J., Seidman, J. G., Seidman, C. E. & Larsen, Lars Allan, 2012, In : Proceedings of the National Academy of Sciences USA (PNAS). 109, 35, p. 14035-40 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review