The NNF Center for Protein Research

  1. 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

  2. Published

    wKinMut-2: Identification and Interpretation of Pathogenic Variants in Human Protein Kinases

    Vazquez, M., Pons, T., Brunak, Søren, Valencia, A. & Izarzugaza, J. M. G., Jan 2016, In : Human Mutation. 37, 1, p. 36-42 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  3. Published

    sAOP: linking chemical stressors to adverse outcomes pathway networks

    Aguayo Orozco, Alejandro, Audouze, K., Siggaard, T., Barouki, R., Brunak, Søren & Taboureau, Olivier Thierry, 2019, In : Bioinformatics. 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  4. Published

    qcML: an exchange format for quality control metrics from mass spectrometry experiments

    Walzer, M., Pernas, L. E., Nasso, S., Bittremieux, W., Nahnsen, S., Kelchtermans, P., Pichler, P., van den Toorn, H. W. P., Staes, A., Vandenbussche, J., Mazanek, M., Taus, T., Scheltema, R. A., Kelstrup, C. D., Gatto, L., van Breukelen, B., Aiche, S., Valkenborg, D., Laukens, K., Lilley, K. S., Olsen, Jesper Velgaard, Heck, A. J. R., Mechtler, K., Aebersold, R., Gevaert, K., Vizcaino, J. A., Hermjakob, H., Kohlbacher, O. & Martens, L., 23 Apr 2014, In : Molecular & Cellular Proteomics. 13, 8, p. 1905-1913 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  5. Published

    p38-MK2 signaling axis regulates RNA metabolism after UV-light-induced DNA damage

    Borisova, M. E., Voigt, A., Tollenaere, M. A. X., Sahu, S. K., Juretschke, T., Kreim, N., Mailand, Niels, Choudhary, Chuna Ram, Bekker-Jensen, Simon Holst, Akutsu, M., Wagner, S. A. & Beli, P., 2018, In : Nature Communications. 9, p. 1-16 16 p., 1017.

    Research output: Contribution to journalJournal articleResearchpeer-review

  6. Published

    p38- and MK2-dependent signalling promotes stress-induced centriolar satellite remodelling via 14-3-3-dependent sequestration of CEP131/AZI1

    Tollenaere, M. A. X., Villumsen, B. H., Blasius, M., Nielsen, J. C., Wagner, S. A., Bartek, J., Beli, P., Mailand, Niels & Bekker-Jensen, Simon Holst, 30 Nov 2015, In : Nature Communications. 6, p. 1-12 12 p., 10075.

    Research output: Contribution to journalJournal articleResearchpeer-review

  7. Published

    miRandola 2017: a curated knowledge base of non-invasive biomarkers

    Russo, Francesco, Di Bella, S., Vannini, F., Berti, G., Scoyni, F., Cook, H. V., Santos, A., Nigita, G., Bonnici, V., Laganà, A., Geraci, F., Pulvirenti, A., Giugno, R., De Masi, F., Belling, Kirstine G, Jensen, Lars Juhl, Brunak, Søren, Pellegrini, M. & Ferro, A., 4 Jan 2018, In : Nucleic Acids Research. 46, D1, p. D354-D359 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  8. Published

    miRNAs in Human Subcutaneous Adipose Tissue: Effects of Weight Loss Induced by Hypocaloric Diet and Exercise

    Kristensen, M. M., Davidsen, P. K., Vigelso, A., Hansen, C. N., Jensen, Lars Juhl, Jessen, N., Bruun, Jens Meldgaard, Dela, Flemming & Helge, Jørn Wulff, Mar 2017, In : Obesity. 25, 3, p. 572-580 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  9. Published

    mGluR5: Exploration of Orthosteric and Allosteric Ligand Binding Pockets and Their Applications to Drug Discovery

    Mølck, C., Harpsøe, Kasper, Gloriam, David E., Mathiesen, Jesper M., Nielsen, S. M. & Bräuner-Osborne, Hans, Oct 2014, In : Neurochemical Research. 39, 10, p. 1862-1875 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  10. Published

    lncRNA Panct1 Maintains Mouse Embryonic Stem Cell Identity by Regulating TOBF1 Recruitment to Oct-Sox Sequences in Early G1

    Chakraborty, D., Paszkowski-Rogacz, M., Berger, N., Ding, L., Mircetic, J., Fu, J., Iesmantavicius, V., Choudhary, Chuna Ram, Anastassiadis, K., Stewart, A. F. & Buchholz, F., 12 Dec 2017, In : Cell Reports. 21, 11, p. 3012-3021 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  11. Published

    iAnn: an event sharing platform for the life sciences

    Jimenez, R. C., Albar, J. P., Bhak, J., Blatter, M., Blicher, T., Brazas, M. D., Brooksbank, C., Budd, A., De Las Rivas, J., Dreyer, J., van Driel, M. A., Dunn, M. J., Fernandes, P. L., van Gelder, C. W. G., Hermjakob, H., Ioannidis, V., Judge, D. P., Kahlem, P., Korpelainen, E., Kraus, H., Loveland, J., Mayer, C., McDowall, J., Moran, F., Mulder, N., Nyronen, T., Rother, K., Salazar, G. A., Schneider, R., Via, A., Villaveces, J. M., Yu, P., Schneider, M. V., Attwood, T. K. & Corpas, M., 5 Jun 2013, In : Bioinformatics (Online). 29, 15, p. 1919-1921

    Research output: Contribution to journalJournal articleResearchpeer-review

  12. Published

    eggNOG v4.0: nested orthology inference across 3686 organisms

    Powell, S., Forslund, K., Szklarczyk, D. M., Trachana, K., Roth, A., Huerta-Cepas, J., Gabaldón, T., Rattei, T., Creevey, C., Kuhn, M., Jensen, Lars Juhl, von Mering, C. & Bork, P., 1 Dec 2013, In : Nucleic Acids Research. 42, D1, p. D231-D239 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  13. Published

    eggNOG v3.0: Orthologous groups covering 1133 organisms at 41 different taxonomic ranges

    Powell, S., Trachana, K., Letunic, I., Doerks, T., Bork, P., Szklarczyk, D., Jensen, Lars Juhl, Roth, A., Von Mering, C., Kuhn, M., Muller, J., Arnold, R. & Rattei, T., 2012, In : Nucleic Acids Research. 40, D1, p. D284-9

    Research output: Contribution to journalJournal articleResearchpeer-review

  14. Published

    eggNOG v2.0: extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations

    Muller, J., Szklarczyk, D., Julien, P., Letunic, I., Roth, A., Kuhn, M., Powell, S., von Mering, C., Doerks, T., Jensen, Lars Juhl & Bork, P., 1 Jan 2010, In : Nucleic Acids Symposium Series. 38, Database issue, p. D190-5

    Research output: Contribution to journalJournal articleResearchpeer-review

  15. Published

    eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses

    Huerta-Cepas, J., Szklarczyk, D., Heller, D., Hernández-Plaza, A., Forslund, S. K., Cook, H., Mende, D. R., Letunic, I., Rattei, T., Jensen, Lars Juhl, von Mering, C. & Bork, P., 2019, In : Nucleic Acids Research. 47, D1, p. D309-D314 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  16. Published

    eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

    Huerta-Cepas, J., Szklarczyk, D., Forslund, K., Cook, H., Heller, D., Walter, M. C., Rattei, T., Mende, D. R., Sunagawa, S., Kuhn, M., Jensen, Lars Juhl, von Mering, C. & Bork, P., 4 Jan 2016, In : Nucleic Acids Research. 44, D1, p. D286-93

    Research output: Contribution to journalJournal articleResearchpeer-review

  17. Published

    ZUFSP Deubiquitylates K63-Linked Polyubiquitin Chains to Promote Genome Stability

    Haahr, Peter Thorlund, Borgermann, N., Guo, X., Typas, Dimitris, Achuthankutty, D., Hoffmann, Saskia, Shearer, Robert Francis, Sixma, T. K. & Mailand, Niels, 2018, In : Molecular Cell. 70, 1, p. 165-174

    Research output: Contribution to journalJournal articleResearchpeer-review

  18. Published

    ZAKα Recognizes Stalled Ribosomes through Partially Redundant Sensor Domains

    Vind, Anna Constance, Snieckute, Goda, Blasius, Melanie, Tiedje, C., Krogh, Nicolai, Bekker-Jensen, D. B., Andersen, Kasper Langebjerg, Nordgaard, Cathrine, Tollenaere, M. A. X., Lund, Anders H., Olsen, Jesper Velgaard, Nielsen, Henrik & Bekker-Jensen, Simon Holst, 2020, In : Molecular Cell. 78, 4, p. 700-713.E7

    Research output: Contribution to journalJournal articleResearchpeer-review

  19. Published

    Yeast expression proteomics by high-resolution mass spectrometry

    Walther, T. C., Olsen, Jesper Velgaard & Mann, Matthias, 1 Jan 2010, In : Methods in Enzymology. 470, p. 259-80 22 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  20. Published

    XTACC3-XMAP215 association reveals an asymmetric interaction promoting microtubule elongation

    Mortuza, G. B., Cavazza, T., Garcia-Mayoral, M. F., Hermida, D., Peset, I., Pedrero, J. G., Merino, N., Blanco, F. J., Lyngsø, J., Bruix, M., Pedersen, J. S., Vernos, I. & Montoya, Guillermo, 29 Sep 2014, In : Nature Communications. 5, p. 1-12 12 p., 5072.

    Research output: Contribution to journalJournal articleResearchpeer-review

  21. Published

    XIAP Restricts TNF- and RIP3-Dependent Cell Death and Inflammasome Activation

    Yabal, M., Müller, N., Adler, H., Knies, N., Groß, C. J., Damgaard, R. B., Kanegane, H., Ringelhan, M., Kaufmann, T., Heikenwälder, M., Strasser, A., Groß, O., Ruland, J., Peschel, C., Gyrd-Hansen, M. & Jost, P. J., 26 Jun 2014, In : Cell Reports. 7, 6, p. 1796-1808

    Research output: Contribution to journalJournal articleResearchpeer-review

  22. Published

    X-linked inhibitor of apoptosis (XIAP) deficiency: The spectrum of presenting manifestations beyond hemophagocytic lymphohistiocytosis

    Speckmann, C., Lehmberg, K., Albert, M. H., Damgaard, R. B., Fritsch, M., Gyrd-Hansen, M., Rensing-Ehl, A., Vraetz, T., Grimbacher, B., Salzer, U., Fuchs, I., Ufheil, H., Belohradsky, B. H., Hassan, A., Cale, C. M., Elawad, M., Strahm, B., Schibli, S., Lauten, M., Kohl, M., Meerpohl, J. J., Rodeck, B., Kolb, R., Eberl, W., Soerensen, J., von Bernuth, H., Lorenz, M., Schwarz, K., zur Stadt, U. & Ehl, S., 1 Oct 2013, In : Clinical Immunology. 149, 1, p. 133-141 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  23. Published

    Writers, Readers, and Erasers of Histone Ubiquitylation in DNA Double-Strand Break Repair

    Smeenk, G. & Mailand, Niels, 28 Jun 2016, In : Frontiers in Genetics. 7, 14 p., 122.

    Research output: Contribution to journalReviewResearchpeer-review

  24. Published

    Will Artificial Intelligence for Drug Discovery Impact Clinical Pharmacology?

    Zhavoronkov, A., Vanhaelen, Q. & Oprea, T. I., 2020, In : Clinical Pharmacology & Therapeutics. 107, 4, p. 780-785 6 p.

    Research output: Contribution to journalReviewResearchpeer-review

  25. Published

    Why is it so difficult to measure glucagon-like peptide-1 in a mouse?

    Windeløv, Johanne Agerlin, Albrechtsen, Nicolai Jacob Wewer, Kuhre, Rune Ehrenreich, Jepsen, Sara Lind, Hornburg, D., Pedersen, J., Jensen, E. P., Galsgaard, Katrine Douglas, Winther-Sørensen, Marie, Ørgaard, A., Deacon, Carolyn F., Mann, Matthias, Kissow, Hannelouise, Hartmann, Bolette & Holst, Jens Juul, Oct 2017, In : Diabetologia. 60, 10, p. 2066-2075 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  26. Published

    What outcomes are important to patients with mild cognitive impairment or Alzheimer's disease, their caregivers, and health-care professionals? A systematic review

    Tochel, C., Smith, M., Baldwin, H., Gustavsson, A., Ly, A., Bexelius, C., Nelson, M., Bintener, C., Fantoni, E., Garre-Olmo, J., Janssen, O., Jindra, C., Jørgensen, Isabella Friis, McKeown, A., Öztürk, B., Ponjoan, A., Potashman, M. H., Reed, C., Roncancio-Diaz, E., Vos, S., Sudlow, C. & ROADMAP consortium, R. C., 2019, In : Alzheimer's and Dementia: Diagnosis, Assessment and Disease Monitoring. 11, p. 231-247 17 p.

    Research output: Contribution to journalReviewResearchpeer-review

  27. Published

    WebCircRNA: Classifying the Circular RNA Potential of Coding and Noncoding RNA.

    Pan, X., Xiong, K., Anthon, Christian, Hyttel, Poul, Freude, Kristine, Jensen, Lars Juhl & Gorodkin, Jan, 6 Nov 2018, In : Genes. 9, 11, 11 p., 536.

    Research output: Contribution to journalJournal articleResearchpeer-review

  28. Published

    Visualizing phosphodiester-bond hydrolysis by an endonuclease

    Molina, Rafael, Stella, Stefano, Redondo, P., Gomez, H., Marcaida, M. J., Orozco, M., Prieto, J. & Montoya, Guillermo, Jan 2015, In : Nature Structural and Molecular Biology. 22, 1, p. 65-72 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  29. Published

    Visualize omics data on networks with Omics Visualizer, a Cytoscape App

    Legeay, Marc, Doncheva, Nadezhda Tsankova, Morris, J. H. & Jensen, Lars Juhl, 2020, In : F1000Research. 9, 1 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  30. Published

    Viruses.STRING: A Virus-Host Protein-Protein Interaction Database

    Cook, H. V., Doncheva, Nadezhda Tsankova, Szklarczyk, D., von Mering, C. & Jensen, Lars Juhl, 2018, In : Viruses. 10, 10, p. 1-11 519.

    Research output: Contribution to journalJournal articleResearchpeer-review

  31. Published

    Variability in the incidence of miRNAs and genes in fragile sites and the role of repeats and CpG islands in the distribution of genetic material

    Laganà, A., Russo, Francesco, Sismeiro, C., Giugno, R., Pulvirenti, A. & Ferro, A., 11 Aug 2010, In : PLoS ONE. 5, 6, e11166.

    Research output: Contribution to journalJournal articleResearchpeer-review

  32. Published

    Utilisation of antibody microarrays for the selection of specific and informative antibodies from recombinant library binders of unknown quality

    Kibat, J., Schirrmann, T., Knape, M. J., Helmsing, S., Meier, D., Hust, M., Schröder, C., Bertinetti, D., Winter, G., Pardes, K., Funk, M., Lages Lino Vala, A., Giese, N., Herberg, F. W., Dübel, S. & Hoheisel, J. D., Sep 2016, In : New Biotechnology. 33, 5A, p. 574-581 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  33. 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

  34. Published

    Using guanidine-hydrochloride for fast and efficient protein digestion and single-step affinity-purification mass spectrometry

    Poulsen, J. W., Madsen, C. T., Young, C., Poulsen, F. M. & Nielsen, Michael Lund, 2013, In : Journal of Proteome Research. 12, 2, p. 1020-30 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  35. Published

    Using electronic patient records to discover disease correlations and stratify patient cohorts

    Roque, F. S., Jensen, P. B., Schmock, H., Dalgaard, M., Andreatta, M., Hansen, T., Søeby, K., Bredkjær, S., Juul, Anders, Werge, Thomas, Jensen, Lars Juhl & Brunak, Søren, 2011, In : P L o S Computational Biology. 7, 8, p. e1002141 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  36. Published

    Use of Computational Biochemistry for Elucidating Molecular Mechanisms of Nitric Oxide Synthase

    Bignon, E., Rizza, S., Filomeni, G. & Papaleo, Elena, 2019, In : Computational and Structural Biotechnology Journal. 17, p. 415-429 15 p.

    Research output: Contribution to journalReviewResearchpeer-review

  37. Published

    Unraveling ancestry, kinship, and violence in a Late Neolithic mass grave

    Schroeder, Hannes, Margaryan, Ashot, Szmyt, M., Theulot, B., Włodarczak, P., Rasmussen, Simon, Gopalakrishnan, Shyam, Szczepanek, A., Konopka, T., Jensen, Theis Zetner Trolle, Witkowska, B., Wilk, S., Przybyła, M. M., Pospieszny, Ł., Sjögren, K., Belka, Z., Olsen, J., Kristiansen, K., Willerslev, Eske, Frei, K. M., Sikora, Martin, Johannsen, N. N. & Allentoft, Morten Erik, 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 22, p. 10705-10710

    Research output: Contribution to journalJournal articleResearchpeer-review

  38. Published

    Unique interaction pattern for a functionally biased ghrelin receptor agonist

    Sivertsen, B. B., Lang, M., Frimurer, T. M., Holliday, N. D., Bach, Anders, Els, S., Engelstoft, M. S., Petersen, P. S., Madsen, A. N., Schwartz, Thue W., Beck-Sickinger, A. G. & Holst, Birgitte, 10 Jun 2011, In : The Journal of Biological Chemistry. 286, 23, p. 20845-20860 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  39. Published

    Unexplored therapeutic opportunities in the human genome

    Oprea, T. I., Bologa, C. G., Brunak, Søren, Campbell, A., Gan, G. N., Gaulton, A., Gomez, S. M., Guha, R., Hersey, A., Holmes, J., Jadhav, A., Jensen, Lars Juhl, Johnson, G. L., Karlson, A., Leach, A. R., Ma'ayan, A., Malovannaya, A., Mani, S., Mathias, S. L., McManus, M. T., Meehan, T. F., von Mering, C., Muthas, D., Nguyen, D., Overington, J. P., Papadatos, G., Qin, J., Reich, C., Roth, B. L., Schürer, S. C., Simeonov, A., Sklar, L. A., Southall, N., Tomita, S., Tudose, I., Ursu, O., Vidovic, D., Waller, A., Westergaard, David, Yang, J. J. & Zahoránszky-Köhalmi, G., 2018, In : Nature Reviews. Drug Discovery. 17, 5, p. 317-332 16 p.

    Research output: Contribution to journalReviewResearchpeer-review

  40. Published

    Understanding the proteome - the missing link for successful drug discovery

    Sundström, M., 2010, In : Bioforum Europe. 1-2, p. 12-13

    Research output: Contribution to journalJournal articleResearchpeer-review

  41. Published

    Understanding the indirect DNA read-out specificity of I-CreI Meganuclease

    Prieto, J., Redondo, P., López-Méndez, B., D'Abramo, M., Merino, N., Blanco, F. J., Duchateau, P., Montoya, Guillermo & Molina, Rafael, 2018, In : Scientific Reports. 8, p. 1-9 10286.

    Research output: Contribution to journalJournal articleResearchpeer-review

  42. Published

    Uncovering SUMOylation Dynamics during Cell-Cycle Progression Reveals FoxM1 as a Key Mitotic SUMO Target Protein

    Schimmel, J., Eifler, K., Sigurdsson, J. O., Cuijpers, S. A. G., Hendriks, I. A., Verlaan-de Vries, M., Kelstrup, C. D., Francavilla, C., Medema, R. H., Olsen, Jesper Velgaard & Vertegaal, A. C. O., 20 Mar 2014, In : Molecular Cell. 53, 6, p. 1053-1066

    Research output: Contribution to journalJournal articleResearchpeer-review

  43. Published

    Ultra-deep and quantitative saliva proteome reveals dynamics of the oral microbiome

    Grassl, N., Kulak, N. A., Pichler, G., Geyer, P. E., Jung, J., Schubert, S., Sinitcyn, P., Cox, J. & Mann, Matthias, 21 Apr 2016, In : Genome Medicine. 8, 13 p., 44.

    Research output: Contribution to journalJournal articleResearchpeer-review

  44. Published

    Ubiquitin-specific Protease 11 (USP11) Deubiquitinates Hybrid Small Ubiquitin-like Modifier (SUMO)-Ubiquitin Chains to Counteract RING Finger Protein 4 (RNF4)

    Hendriks, I. A., Schimmel, J., Eifler, K., Olsen, Jesper Velgaard & Vertegaal, A. C. O., 19 Jun 2015, In : The Journal of Biological Chemistry. 290, 25, p. 15526-37 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  45. Published

    Ubiquitin-like protein UBL5 promotes the functional integrity of the Fanconi anemia pathway

    Oka, Y., Bekker-Jensen, Simon Holst & Mailand, Niels, 9 Apr 2015, In : E M B O Journal. 34, p. 1385-1398

    Research output: Contribution to journalJournal articleResearchpeer-review

  46. Published

    Ubiquitin-SUMO Circuitry Controls Activated Fanconi Anemia ID Complex Dosage in Response to DNA Damage

    Gibbs-Seymour, I., Oka, Y., Rajendra, E., Weinert, B. T., Passmore, L. A., Patel, K. J., Olsen, Jesper Velgaard, Choudhary, Chuna Ram, Bekker-Jensen, Simon Holst & Mailand, Niels, Jan 2015, In : Molecular Cell. 57, 1, p. 150-64 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  47. 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

  48. Published

    Ubiquitin C-terminal hydrolase-L1 potentiates cancer chemosensitivity by stabilizing NOXA

    Brinkmann, K., Zigrino, P., Witt, A., Schell, M., Ackermann, Leena, Broxtermann, P., Schüll, S., Andree, M., Coutelle, O., Yazdanpanah, B., Seeger, J. M., Klubertz, D., Drebber, U., Hacker, U. T., Krönke, M., Mauch, C., Hoppe, T. & Kashkar, H., 28 Mar 2013, In : Cell Reports. 3, 3, p. 881-91 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  49. Published

    UbiSite approach for comprehensive mapping of lysine and N-terminal ubiquitination sites

    Akimov, V., Barrio-Hernandez, I., Hansen, S. V. F., Hallenborg, P., Pedersen, A., Bekker-Jensen, D. B., Puglia, M., Christensen, S. D. K., Vanselow, J. T., Nielsen, M. M., Kratchmarova, I., Kelstrup, C. D., Olsen, Jesper Velgaard & Blagoev, B., 2018, In : Nature Structural & Molecular Biology. 25, p. 631-640 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  50. Published

    UBL5 is essential for pre-mRNA splicing and sister chromatid cohesion in human cells

    Oka, Y., Varmark, H., Vitting-Seerup, Kristoffer, Beli, P., Waage, J. E., Hakobyan, A., Mistrik, M., Choudhary, Chuna Ram, Rohde, M., Bekker-Jensen, Simon Holst & Mailand, Niels, 2014, In : E M B O Reports. 15, 9, p. 956-964 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  51. Accepted/In press

    Two new polymorphic structures of human full-length alpha-synuclein fibrils solved by cryo-electron microscopy

    Guerrero-Ferreira, R., Taylor, Nicholas M I, Arteni, A., Kumari, P., Mona, D., Ringler, P., Britschgi, M., Lauer, M. E., Makky, A., Verasdonck, J., Riek, R., Melki, R., Meier, B. H., Böckmann, A., Bousset, L. & Stahlberg, H., 2020, (Accepted/In press) In : eLife.

    Research output: Contribution to journalJournal articleResearchpeer-review

  52. Published

    Two functionally distinct kinetochore pools of BubR1 ensure accurate chromosome segregation

    Zhang, G., Mendez, B. L., Sedgwick, G. G. & Nilsson, Jakob, 2016, In : Nature Communications. 7, p. 1-12 12 p., 12256.

    Research output: Contribution to journalJournal articleResearchpeer-review

  53. Published

    Two Lactococcus lactis thioredoxin paralogues play different roles in responses to arsenate and oxidative stress

    Efler, P., Kilstrup, M., Johnsen, S., Svensson, B. & Hägglund, Per Mårten, 1 Mar 2015, In : Microbiology (United Kingdom). 161, 3, p. 528-538 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  54. Published

    Truncated SALL1 Impedes Primary Cilia Function in Townes-Brocks Syndrome

    Bozal-Basterra, L., Martín-Ruíz, I., Pirone, L., Liang, Y., Sigurðsson, J. O., Gonzalez-Santamarta, M., Giordano, I., Gabicagogeascoa, E., de Luca, A., Rodríguez, J. A., Wilkie, A. O. M., Kohlhase, J., Eastwood, D., Yale, C., Olsen, Jesper Velgaard, Rauchman, M., Anderson, K. V., Sutherland, J. D. & Barrio, R., 2018, In : American Journal of Human Genetics. 102, 2, p. 249-265 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  55. Published

    Treacle controls the nucleolar response to rDNA breaks via TOPBP1 recruitment and ATR activation

    Mooser, C., Symeonidou, I., Leimbacher, P., Ribeiro, A., Shorrocks, A. K., Jungmichel, S., Buch-Larsen, Sara Charlotte, Knechtle, K., Jasrotia, A., Zurbriggen, D., Jeanrenaud, A., Leikauf, C., Fink, D., Nielsen, Michael Lund, Blackford, A. N. & Stucki, M., 8 Jan 2020, In : Nature Communications. 11, 1, p. 123

    Research output: Contribution to journalJournal articleResearchpeer-review

  56. Published

    Trapped ion mobility spectrometry and PASEF enable in-depth lipidomics from minimal sample amounts

    Vasilopoulou, C. G., Sulek, Karolina, Brunner, A., Meitei, N. S., Schweiger-Hufnagel, U., Meyer, S. W., Barsch, A., Mann, Matthias & Meier, F., 16 Jan 2020, In : Nature Communications. 11, 1, p. 331

    Research output: Contribution to journalJournal articleResearchpeer-review

  57. Published

    Transfection of small RNAs globally perturbs gene regulation by endogenous microRNAs

    Khan, A. A., Betel, D., Miller, M. L., Sander, C., Leslie, C. S. & Marks, D. S., 2009, In : Nature Biotechnology. 27, 6, p. 549-55 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  58. Published

    Transcriptome profiling of mice testes following low dose irradiation

    Belling, Kirstine G, Nielsen, H. B., Brunak, Søren, Tanaka, M., Dalgaard, M. D., Nielsen, J. E., Almstrup, K. & Leffers, H., 28 May 2013, In : Reproductive Biology and Endocrinology. 11, 1, 13 p., 50.

    Research output: Contribution to journalJournal articleResearchpeer-review

  59. Published

    Transcriptome landscape of protein-coding genes and long noncoding RNAs in the colon and blood of DSS-induced mouse model of Acute ulcerative colitis

    Yarani, R., Palasca, O., Doncheva, Nadezhda Tsankova, Anthon, Christian, Pilecki, B., Litman, Thomas, Holmskov, U., Jensen, Lars Juhl, Gorodkin, Jan & Pociot, Flemming, 2019, In : Journal of Crohn's and Colitis. 13, p. S129-S130

    Research output: Contribution to journalConference abstract in journalResearchpeer-review

  60. Published

    Transcriptome and metabolite changes during hydrogen cyanamide-induced floral bud break in sweet cherry

    Ionescu, I. A., Lopez-Ortega, G., Burow, Meike, Bayo-Canha, A., Junge, A., Gericke, Oliver, Møller, Birger Lindberg & Sánchez Pérez, R., 2017, In : Frontiers in Plant Science. 8, 17 p., 1233.

    Research output: Contribution to journalJournal articleResearchpeer-review

  61. Published

    Transcriptome analysis of the adult human Klinefelter testis and cellularity-matched controls reveals disturbed differentiation of Sertoli- and Leydig cells

    Winge, S. B., Dalgaard, M. D., Belling, Kirstine G, Jensen, J. M., Nielsen, J. E., Aksglaede, L., Schierup, M. H., Brunak, Søren, Skakkebæk, Niels Erik, Juul, Anders, Rajpert-De Meyts, E. & Almstrup, K., 2018, In : Cell Death & Disease. 9, 6, 14 p., 586.

    Research output: Contribution to journalJournal articleResearchpeer-review

  62. Published

    Transcriptome analysis in patients with temporal lobe epilepsy

    Kjær, C., Barzaghi, G., Bak, Lasse Kristoffer, Goetze, Jens P. , Yde, C. W., Woldbye, David Paul Drucker, Pinborg, Lars Hageman & Jensen, Lars Juhl, 2019, In : Brain. 142, 10, p. 49-64 16 p., e55.

    Research output: Contribution to journalLetterResearchpeer-review

  63. Published

    Transcriptional regulation is a major controller of cell cycle transition dynamics

    Romanel, A., Jensen, Lars Juhl, Cardelli, L. & Csikász-Nagy, A., 2012, In : P L o S One. 7, 1, p. e29716

    Research output: Contribution to journalJournal articleResearchpeer-review

  64. Published

    Transcriptional intermediary factor 1γ binds to the anaphase-promoting complex/cyclosome and promotes mitosis

    Sedgwick, G. G., Townsend, K., Martin, A., Shimwell, N. J., Grand, R. J. A., Stewart, G. S., Nilsson, Jakob & Turnell, A. S., 2013, In : Oncogene. 32, 39, p. 4622-4633 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  65. Published

    Transcriptional interactions suggest niche segregation among microorganisms in the human gut

    Plichta, D. R., Juncker, A. S., Bertalan, M., Rettedal, E., Gautier, L., Varela, E., Manichanh, C., Fouqueray, C., Levenez, F., Nielsen, Trine, Doré, J., Machado, A. M. D., de Evgrafov, M. C. R., Hansen, Torben, Jørgensen, T., Bork, P., Guarner, F., Pedersen, Oluf Borbye, Metagenomics of the Human Intestinal Tract (MetaHIT) Consortium, M. O. T. H. I. T. (. C., Sommer, M. O. A., Ehrlich, S. D., Sicheritz-Pontén, T., Brunak, Søren & Nielsen, H. B., 26 Aug 2016, In : Nature Microbiology. 1, p. 1-6 6 p., 16152.

    Research output: Contribution to journalLetterResearchpeer-review

  66. Published

    Toxicogenomics directory of rat hepatotoxicants in vivo and in cultivated hepatocytes

    Grinberg, M., Stöber, R. M., Albrecht, W., Edlund, K., Schug, M., Godoy, P., Cadenas, C., Marchan, R., Lampen, A., Braeuning, A., Buhrke, T., Leist, M., Oberemm, A., Hellwig, B., Kamp, H., Gardner, I., Escher, S., Taboureau, Olivier Thierry, Aguayo Orozco, Alejandro, Sachinidis, A., Ellinger-Ziegelbauer, H., Rahnenführer, J. & Hengstler, J. G., 2018, In : Archives of Toxicology. 92, 12, p. 3517-3533 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  67. Published

    Towards a rigorous network of protein-protein interactions of the model sulfate reducer Desulfovibrio vulgaris Hildenborough

    Chhabra, S. R., Joachimiak, M. P., Petzold, C. J., Zane, G. M., Price, M. N., Reveco, S. A., Fok, V., Johanson, A. R., Batth, Tanveer Singh, Singer, M., Chandonia, J., Joyner, D., Hazen, T. C., Arkin, A. P., Wall, J. D., Singh, A. K. & Keasling, J. D., 2011, In : PLOS ONE. 6, 6, p. e21470

    Research output: Contribution to journalJournal articleResearchpeer-review

  68. Published

    Towards a coordination of European activities to diagnose and manage insect diseases in production facilities

    Eilenberg, Jørgen, van Oers, M. M., Jensen, A. B., Lecocq, Antoine, Maciel Vergara, Gabriela, Andrade Santacoloma, L. P., van Loon, J. J. A. & Hesketh, H., 2018, In : Journal of Insects as Food and Feed. 4, 3, p. 157-166 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  69. Published

    Toward molecular trait-based ecology through integration of biogeochemical, geographical and metagenomic data

    Raes, J., Letunic, I., Yamada, T., Jensen, Lars Juhl & Bork, P., 2011, In : Molecular Systems Biology. 7, p. 473

    Research output: Contribution to journalJournal articleResearchpeer-review

  70. Published

    Tousled-like kinases stabilize replication forks and show synthetic lethality with checkpoint and PARP inhibitors

    Lee, S., Segura-Bayona, S., Villamor-Payà, M., Saredi, G., Todd, Matthew, Attolini, C. S., Chang, T., Stracker, T. H. & Groth, Anja, 2018, In : Science Advances. 4, 8, p. 1-14 14 p., eaat4985.

    Research output: Contribution to journalJournal articleResearchpeer-review

  71. Published

    Tousled-like kinases phosphorylate Asf1 to promote histone supply during DNA replication

    Kamalyukova, I. M., Young, C., Strømme, C. B., Ménard, Patrice, Jasencakova, Zuzana, Mejlvang, J., Ask, K., Ploug, Michael, Nielsen, Michael Lund, Jensen, O. N. & Groth, Anja, 2014, In : Nature Communications. 5, p. 3394

    Research output: Contribution to journalJournal articleResearchpeer-review

  72. Published

    Toppar: an interactive browser for viewing association study results

    Juliusdottir, T., Banasik, Karina, Robertson, N. R., Mott, R. & McCarthy, M. I., 2018, In : Bioinformatics. 34, 11, p. 1922-1924 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  73. Published

    TopBP1 is required at mitosis to reduce transmission of DNA damage to G1 daughter cells

    Pedersen, R. T., Kruse, Thomas, Nilsson, Jakob, Østergaard, Vibe Hallundbæk & Lisby, Michael, 2015, In : Journal of Cell Biology. 210, 4, p. 565-582 18 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  74. Published

    Top-Down and Intact Protein Mass Spectrometry Data Visualization for Proteoform Analysis Using VisioProt-MS

    Lesne, J., Bousquet, M., Marcoux, J. & Locard-Paulet, Marie, 2019, In : Bioinformatics and Biology Insights. 13, 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  75. Published

    Tools and data services registry: a community effort to document bioinformatics resources

    Ison, J., Rapacki, K., Ménager, H., Kalaš, M., Rydza, E., Chmura, P., Anthon, Christian, Beard, N., Berka, K., Bolser, D., Booth, T., Bretaudeau, A., Brezovsky, J., Casadio, R., Cesareni, G., Coppens, F., Cornell, M., Cuccuru, G., Davidsen, K., Vedova, G. D., Dogan, T., Doppelt-Azeroual, O., Emery, L., Gasteiger, E., Gatter, T., Goldberg, T., Grosjean, M., Grüning, B., Helmer-Citterich, M., Ienasescu, H., Ioannidis, V., Jespersen, M. C., Jimenez, R., Juty, N., Juvan, P., Koch, M., Laibe, C., Li, J., Licata, L., Mareuil, F., Mičetić, I., Friborg, R. M., Moretti, S., Morris, C., Möller, S., Nenadic, A., Peterson, H., Profiti, G., Rice, P., Romano, P., Roncaglia, P., Saidi, R., Schafferhans, A., Schwämmle, V., Smith, C., Sperotto, M. M., Stockinger, H., Vařeková, R. S., Tosatto, S. C. E., de la Torre, V., Uva, P., Via, A., Yachdav, G., Zambelli, F., Vriend, G., Rost, B., Parkinson, H., Løngreen, P. & Brunak, Søren, 2016, In : Nucleic Acids Research. 44, D1, p. D38-D47 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  76. Published

    To spread or not to spread - chromatin modifications in response to DNA damage

    Altmeyer, M. & Lukas, Jiri, 9 Jan 2013, In : Current Opinion in Genetics & Development. 23, 2, p. 156-165 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  77. Published

    Time-resolved dissection of early phosphoproteome and ensuing proteome changes in response to TGF-β

    J D'Souza, R. C., Knittle, A. M., Nagaraj, N., van Dinther, M., Choudhary, Chuna Ram, Ten Dijke, P., Mann, Matthias & Sharma, K., Jul 2014, In : Science signaling. 7, 335, p. rs5 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  78. Published

    Time-Resolved Analysis Reveals Rapid Dynamics and Broad Scope of the CBP/p300 Acetylome

    Weinert, B. T., Narita, Takeo, Satpathy, S., Srinivasan, Balaji, Hansen, B. K., Schölz, C., Hamilton, William, Zucconi, B. E., Wang, W. W., Liu, W. R., Brickman, Joshua Mark, Kesicki, E. A., Lai, A., Bromberg, K. D., Cole, P. A. & Choudhary, Chuna Ram, 2018, In : Cell. 174, 1, p. 231-244.e12 27 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  79. 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

  80. Published

    The use of systems biology in chemical risk assessment

    Aguayo Orozco, Alejandro, Taboureau, Olivier Thierry & Brunak, Søren, 2019, In : Current Opinion in Toxicology. 15, p. 48-54 7 p.

    Research output: Contribution to journalReviewResearchpeer-review

  81. Published

    The use of combined heart rate response and accelerometry to assess the level and predictors of physical activity in tuberculosis patients in Tanzania

    Faurholt-Jepsen, M., Faurholt-Jepsen, D., Range, N., Praygod, G., Jeremiah, K., Aabye, M. G., Changalucha, J., Krarup, H., Christensen, Dirk Lund, Andersen, A. B., Brage, S. & Friis, Henrik, 2014, In : Epidemiology and Infection. 142, 6, p. 1334-1342 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  82. Published

    The ubiquitin-selective segregase VCP/p97 orchestrates the response to DNA double-strand breaks

    Meerang, M., Ritz, D., Paliwal, S., Garajova, Z., Bosshard, M., Mailand, Niels, Janscak, P., Hübscher, U., Meyer, H. & Ramadan, K., 2011, In : Nature Cell Biology. 13, 11, p. 1376-82 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  83. Published

    The ubiquitin- and SUMO-dependent signaling response to DNA double-strand breaks

    Bekker-Jensen, Simon Holst & Mailand, Niels, 12 Jun 2011, In : FEBS letters. 585, p. 2914-2919 6 p.

    Research output: Contribution to journalReviewResearchpeer-review

  84. Published

    The ubiquitin ligase Cullin5SOCS2 regulates NDR1/STK38 stability and NF-κB transactivation

    Paul, I., Batth, Tanveer Singh, Iglesias Gato, Diego, Al-Araimi, A., Al-Haddabi, I., Alkharusi, A., Norstedt, G., Olsen, Jesper Velgaard, Zadjali, F. & Flores-Morales, A., 2017, In : Scientific Reports. 7, 14 p., 42800.

    Research output: Contribution to journalJournal articleResearchpeer-review

  85. Published

    The type 2 diabetes associated minor allele of rs2237895 KCNQ1 associates with reduced insulin release following an oral glucose load

    Holmkvist, J., Banasik, K., Andersen, G., Unoki, H., Jensen, T. S., Pisinger, Charlotta Holm, Borch-Johnsen, K., Sandbaek, A., Lauritzen, T., Brunak, Søren, Maeda, S., Hansen, T. & Pedersen, Oluf Borbye, 2009, In : PLoS ONE. 4, 6, p. e5872

    Research output: Contribution to journalJournal articleResearchpeer-review

  86. Published

    The shape of the DNA minor groove directs binding by the DNA-bending protein Fis

    Stella, Stefano, Cascio, D. & Johnson, R. C., 15 Apr 2010, In : Genes and Development. 24, 8, p. 814-826 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  87. Published

    The role of physical activity in metabolic homeostasis before and after the onset of type 2 diabetes: an IMI DIRECT study

    Koivula, R. W., Atabaki-Pasdar, N., Giordano, G. N., White, T., Adamski, J., Bell, J. D., Beulens, J., Brage, S., Brunak, Søren, De Masi, F., Dermitzakis, E. T., Forgie, I. M., Frost, G., Hansen, Torben, Hansen, Tue Haldor, Hattersley, A., Kokkola, T., Kurbasic, A., Laakso, M., Mari, A., McDonald, T. J., Pedersen, Oluf Borbye, Rutters, F., Schwenk, J. M., Teare, H. J. A., Thomas, E. L., Vinuela, A., Mahajan, A., McCarthy, M. I., Ruetten, H., Walker, M., Pearson, E., Pavo, I., Franks, P. W. & IMI-DIRECT consortium, I. C., 2020, In : Diabetologia. 63, 4, p. 744-756 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  88. Published

    The role of extracellular matrix quality in pulmonary fibrosis

    Kristensen, J. H., Karsdal, M. A., Genovese, F., Johnson, S., Svensson, B., Jacobsen, S., Hägglund, Per Mårten & Leeming, D. J., 14 Apr 2014, In : Respiration. 88, 6, p. 487-499 13 p.

    Research output: Contribution to journalReviewResearchpeer-review

  89. Published

    The role of HERC2 and RNF8 ubiquitin E3 ligases in the promotion of translesion DNA synthesis in the chicken DT40 cell line

    Mohiuddin, M., Kobayashi, S., Keka, I. S., Guilbaud, G., Sale, J., Narita, Takeo, Abdel-Aziz, H. I., Wang, X., Ogawa, S., Sasanuma, H., Chiu, R., Østergaard, Vibe Hallundbæk, Lisby, Michael & Takeda, S., Apr 2016, In : DNA Repair. 40, p. 67-76 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  90. Published

    The rise and fall of supervised machine learning techniques

    Jensen, Lars Juhl & Bateman, A., 2011, In : Bioinformatics (Online). 27, 24, p. 3331-2 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  91. Published

    The proteome of prostate cancer bone metastasis reveals heterogeneity with prognostic implications

    Iglesias Gato, Diego, Thysell, E., Tyanova, S., Crnalic, S., Santos, A., Lima, T. S., Geiger, T., Cox, J., Widmark, A., Bergh, A., Mann, Matthias, Flores-Morales, A. & Wikström, P., 2018, In : Clinical Cancer Research. 24, 21, p. 5433-5444 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  92. Published

    The protein kinase SIK downregulates the polarity protein Par3

    Vanlandewijck, M., Dadras, M. S., Lomnytska, M., Mahzabin, T., Miller, M. L., Busch, C., Brunak, Søren, Heldin, C. & Moustakas, A., 2018, In : OncoTarget. 9, 5, p. 5716-5735 20 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  93. Published

    The phosphoproteome of toll-like receptor-activated macrophages

    Weintz, G., Olsen, Jesper Velgaard, Frühauf, K., Niedzielska, M., Amit, I., Jantsch, J., Mages, J., Frech, C., Dölken, L., Mann, M. & Lang, R., 8 Jun 2010, In : Molecular Systems Biology. 6, p. 371

    Research output: Contribution to journalJournal articleResearchpeer-review

  94. Published

    The p97-Ataxin 3 complex regulates homeostasis of the DNA damage response E3 ubiquitin ligase RNF8

    Singh, A. N., Oehler, J., Torrecilla, I., Kilgas, S., Li, S., Vaz, B., Guerillon, C., Fielden, J., Esperanza Hernandez-Carralero, Cabrera, E., Tullis, I. D. C., Meerang, M., Barber, P. R., Freire, R., Parsons, J., Vojnovic, B., Kiltie, A. E., Mailand, Niels & Ramadan, K., 2019, In : EMBO Journal. 38, 25 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  95. 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

  96. Published

    The miRNA Pull Out Assay as a Method to Validate the miR-28-5p Targets Identified in Other Tumor Contexts in Prostate Cancer

    Rizzo, M., Berti, G., Russo, Francesco, Evangelista, M., Pellegrini, M. & Rainaldi, G., 2017, In : International Journal of Genomics. 2017, 7 p., 5214806.

    Research output: Contribution to journalJournal articleResearchpeer-review

  97. Published

    The liver-alpha cell axis and type 2 diabetes

    Albrechtsen, Nicolai Jacob Wewer, Pedersen, J., Galsgaard, Katrine Douglas, Winther-Sørensen, Marie, Suppli, M. P., Janah, L., Gromada, J., Vilstrup, H., Knop, Filip Krag & Holst, Jens Juul, 2019, In : Endocrine Reviews. 40, 5, p. 1353-1366

    Research output: Contribution to journalReviewResearchpeer-review

  98. Published

    The internal Cdc20 binding site in BubR1 facilitates both spindle assembly checkpoint signalling and silencing

    Lischetti, T., Zhang, G., Sedgwick, G. G., Bolanos-Garcia, V. M. & Nilsson, Jakob, Dec 2014, In : Nature Communications. 5, p. 1-12 12 p., 5563.

    Research output: Contribution to journalJournal articleResearchpeer-review

  99. Published

    The impact of the protein interactome on the syntenic structure of mammalian genomes

    Kirk, I. K., Weinhold, N., Brunak, Søren & Belling, Kirstine G, 2017, In : PLOS ONE. 12, 9, 14 p., e0179112.

    Research output: Contribution to journalJournal articleResearchpeer-review

  100. Published

    The impact of structural integrity and route of administration on the antibody specificity against three cow's milk allergens - a study in Brown Norway rats

    Madsen, J. L., Kroghsbo, S., Madsen, C. B., Pozdnyakova, I., Barkholt, V. & Bøgh, K. L., 2014, In : Clinical and Translational Allergy. 4, 12 p., 25.

    Research output: Contribution to journalJournal articleResearchpeer-review

  101. Published

    The hunt for fatal myocardial infarction biomarkers: predictive circulating microRNAs

    Russo, Francesco, Rizzo, M., Belling, Kirstine G, Brunak, Søren & Folkersen, L., Oct 2016, In : Journal of Translational Medicine. 4, Suppl 1, 4 p., S1.

    Research output: Contribution to journalEditorialResearch

  102. Published

    The human methyltransferase ZCCHC4 catalyses N6-methyladenosine modification of 28S ribosomal RNA

    Pinto, R., Vågbø, C. B., Jakobsson, M. E., Kim, Y., Baltissen, M. P., O'Donohue, M., Guzmán, U. H., Małecki, J. M., Wu, J., Kirpekar, F., Olsen, Jesper Velgaard, Gleizes, P., Vermeulen, M., Leidel, S. A., Slupphaug, G. & Falnes, P. Ø., 24 Jan 2020, In : Nucleic Acids Research. 48, 2, p. 830-846 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  103. Published

    The human endogenous metabolome as a pharmacology baseline for drug discovery

    Bofill, A., Jalencas, X., Oprea, T. I. & Mestres, J., 2019, In : Drug Discovery Today. 24, 9-12, p. 1806-1820

    Research output: Contribution to journalReviewResearchpeer-review

  104. Published

    The growing landscape of lysine acetylation links metabolism and cell signalling

    Choudhary, Chuna Ram, Weinert, B. T., Nishida, Y., Verdin, E. & Mann, Matthias, 23 Jul 2014, In : Nature Reviews. Molecular Cell Biology. 15, 8, p. 536-50 15 p.

    Research output: Contribution to journalReviewResearchpeer-review

  105. Published

    The governance structure for data access in the DIRECT consortium: an innovative medicines initiative (IMI) project

    Teare, H. J. A., de Masi, F., Banasik, Karina, Barnett, A., Herrgard, S., Jablonka, B., Postma, J. W. M., McDonald, T. J., Forgie, I., Chmura, P. J., Rydzka, E. K., Gupta, R., Brunak, Søren, Pearson, E. & Kaye, J., 2018, In : Life Sciences, Society and Policy. 14, 1, p. 1-17 20.

    Research output: Contribution to journalJournal articleResearchpeer-review

  106. Published

    The genome editing revolution: A CRISPR-Cas TALE off-target story

    Stella, Stefano & Montoya, Guillermo, Jul 2016, In : BioEssays. 38, S1, p. S4-S13

    Research output: Contribution to journalJournal articleResearchpeer-review

  107. Published

    The forebrain synaptic transcriptome is organized by clocks but its proteome is driven by sleep

    Noya, S. B., Colameo, D., Brüning, F., Spinnler, A., Mircsof, D., Opitz, L., Mann, Matthias, Tyagarajan, S. K., Robles, M. S. & Brown, S. A., 2019, In : Science. 366, 6462, eaav2642 .

    Research output: Contribution to journalJournal articleResearchpeer-review

  108. Published

    The first step towards personalized risk prediction for common epilepsies

    Hansen, Thomas Folkmann & Møller, R. S., 2019, In : Brain. 142, p. 3316-3318 3 p.

    Research output: Contribution to journalComment/debateResearch

  109. Published

    The ever expanding scope of electrospray mass spectrometry-a 30 year journey

    Mann, Matthias, 2019, In : Nature Communications. 10, 3744.

    Research output: Contribution to journalComment/debateResearch

  110. Published
  111. Published

    The dual methyltransferase METTL13 targets N terminus and Lys55 of eEF1A and modulates codon-specific translation rates

    Jakobsson, M. E., Małecki, J. M., Halabelian, L., Nilges, B. S., Pinto, R., Kudithipudi, S., Munk, S., Davydova, E., Zuhairi, F. R., Arrowsmith, C. H., Jeltsch, A., Leidel, S. A., Olsen, Jesper Velgaard & Falnes, P. Ø., 2018, In : Nature Communications. 9, 1, 3411.

    Research output: Contribution to journalJournal articleResearchpeer-review

  112. Published

    The deubiquitylating enzyme USP44 counteracts the DNA double-strand break response mediated by the RNF8 and RNF168 ubiquitin ligases

    Mosbech, A., Lukas, Claudia, Bekker-Jensen, Simon Holst & Mailand, Niels, 24 Apr 2013, In : Journal of Biological Chemistry. 288, p. 16579-16587 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  113. Published

    The derived allele of a novel intergenic variant at chromosome 11 associates with lower body mass index and a favorable metabolic phenotype in Greenlanders

    Lepola, Mette Andersen, Jørsboe, Emil, Skotte, L., Hanghøj, Kristian Ebbesen, Sandholt, C. H., Moltke, Ida, Grarup, Niels, Kern, T., Mahendran, Y., Søborg, B., Bjerregaard, P., Larsen, C. V. L., Dahl-Petersen, I. K., Tiwari, H. K., Feenstra, B., Koch, A., Wiener, H. W., Hopkins, S. E., Pedersen, Oluf Borbye, Melbye, Mads, Boyer, B. B., Jørgensen, M. E., Albrechtsen, Anders & Hansen, Torben, 2020, In : PLOS Genetics. 16, 1, 17 p., e1008544.

    Research output: Contribution to journalJournal articleResearchpeer-review

  114. Published

    The dental proteome of Homo antecessor

    Welker, Frido, Ramos Madrigal, Jazmin, Gutenbrunner, P., Mackie, Meaghan, Tiwary, S., Rakownikow Jersie-Christensen, R., Chiva, C., Dickinson, M. R., Kuhlwilm, M., de Manuel, M., Gelabert, P., Martinón-Torres, M., Margvelashvili, A., Arsuaga, J. L., Carbonell, E., Marques-Bonet, T., Penkman, K., Sabidó, E., Cox, J., Olsen, Jesper Velgaard, Lordkipanidze, D., Racimo, Fernando, Lalueza-Fox, C., Bermúdez de Castro, J. M., Willerslev, Eske & Cappellini, Enrico, Apr 2020, In : Nature. 580, 7802, p. 235-238 4 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  115. Published

    The closed form of Mad2 is bound to Mad1 and Cdc20 at unattached kinetochores

    Zhang, G. & Nilsson, Jakob, 2018, In : Cell Cycle. 17, 9, p. 1087-1091

    Research output: Contribution to journalJournal articleResearchpeer-review

  116. Published

    The biomolecular characterization of a finger ring contextually dated to the emergence of the Early Neolithic from Syltholm, Denmark

    Jensen, Theis Zetner Trolle, Mackie, Meaghan, Taurozzi, Alberto John, Lanigan, Liam Thomas, Gundelach, C., Olsen, J., Sørensen, S. A., Collins, Matthew James, Sørensen, Mikkel & Schroeder, Hannes, 2020, In : Royal Society Open Science. 7, 1, 16 p., 191172.

    Research output: Contribution to journalJournal articleResearchpeer-review

  117. Published

    The binding of NCAM to FGFR1 induces a specific cellular response mediated by receptor trafficking

    Francavilla, C., Cattaneo, P., Berezin, V., Bock, E., Ami, D., de Marco, A., Christofori, G. & Cavallaro, U., 2009, In : Journal of Cell Biology. 187, 7, p. 1101-16 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  118. Published

    The association between anxiety and measures of glycaemia in a population-based diabetes screening programme

    Aujla, N., Davies, Michael Jonathan, Skinner, Timothy, Gray, L. J., Webb, D. R., Srinivasan, Balaji & Khunti, K., 1 Jul 2011, In : Diabetic Medicine. 28, 7, p. 785-788 4 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  119. 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

  120. Published

    The Ubiquitin Ligase XIAP Recruits LUBAC for NOD2 Signaling in Inflammation and Innate Immunity

    Damgaard, R. B., Nachbur, U., Yabal, M., Wong, W. W., Fiil, Berthe Katrine, Kastirr, M., Rieser, E., Rickard, J. A., Bankovacki, A., Peschel, C., Ruland, J., Bekker-Jensen, Simon Holst, Mailand, Niels, Kaufmann, T., Strasser, A., Walczak, H., Silke, J., Jost, P. J. & Gyrd-Hansen, M., 2012, In : Molecular Cell. 46, 6, p. 746-58 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  121. Published

    The Spindle Assembly Checkpoint Is Not Essential for Viability of Human Cells with Genetically Lowered APC/C Activity

    Wild, T., Larsen, M. S. Y., Narita, Takeo, Schou, J., Nilsson, Jakob & Choudhary, Chuna Ram, 1 Mar 2016, In : Cell Reports. 14, 8, p. 1829-40 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  122. Published

    The STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible

    Szklarczyk, D., Morris, J. H., Cook, H., Kuhn, M., Wyder, S., Simonovic, M., Santos Delgado, A., Doncheva, Nadezhda Tsankova, Roth, A., Bork, P., Jensen, Lars Juhl & von Mering, C., Jan 2017, In : Nucleic Acids Research. 45, D1, p. D362-D368

    Research output: Contribution to journalJournal articleResearchpeer-review

  123. Published

    The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored

    Szklarczyk, D., Franceschini, A., Kuhn, M., Simonovic, M., Roth, A., Minguez, P., Doerks, T., Stark, M., Muller, J., Bork, P., Jensen, Lars Juhl & von Mering, C., 2011, In : Nucleic Acids Research. 39, Database issue, p. D561-8

    Research output: Contribution to journalJournal articleResearchpeer-review

  124. Published

    The SPECIES and ORGANISMS Resources for Fast and Accurate Identification of Taxonomic Names in Text

    Pafilis, E., Pletscher-Frankild, S., Fanini, L., Faulwetter, S., Pavloudi, C., Vasileiadou, A., Arvanitidis, C. & Jensen, Lars Juhl, 18 Jun 2013, In : PloS one. 8, 6, p. e65390

    Research output: Contribution to journalJournal articleResearchpeer-review

  125. Published

    The SOCS2 Ubiquitin Ligase Complex Regulates Growth Hormone Receptor Levels

    Vesterlund, M., Zadjali, F., Persson, T., Nielsen, Michael Lund, Kessler, B. M., Norstedt, G. & Flores Morales, A., 1 Jan 2011, In : P L o S One. 6, 9, p. e25358 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  126. Published

    The SIDER database of drugs and side effects

    Kuhn, M., Letunic, I., Jensen, Lars Juhl & Bork, P., 4 Jan 2016, In : Nucleic Acids Research. 44, p. D1075-9

    Research output: Contribution to journalJournal articleResearchpeer-review

  127. Published

    The SH2 domain interaction landscape

    Tinti, M., Kiemer, L., Costa, S., Miller, M. L., Sacco, F., Olsen, Jesper Velgaard, Carducci, M., Paoluzi, S., Langone, F., Workman, C., Blom, N., Machida, K., Thompson, C. M., Schutkowski, M., Brunak, Søren, Mann, Matthias, Mayer, B. J., Castagnoli, L. & Cesareni, G., 2013, In : Cell Reports. 3, 4, p. 1293-1305 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  128. Published

    The Role of TTP Phosphorylation in the Regulation of Inflammatory Cytokine Production by MK2/3

    Ronkina, N., Shushakova, N., Tiedje, C., Yakovleva, T., Tollenaere, M. A. X., Scott, A., Batth, Tanveer Singh, Olsen, Jesper Velgaard, Helmke, A., Bekker-Jensen, Simon Holst, Clark, A. R., Kotlyarov, A. & Gaestel, M., 2019, In : Journal of immunology (Baltimore, Md. : 1950). 203, 8, p. 2291-2300 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  129. 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

  130. Published

    The RIF1-PP1 Axis Controls Abscission Timing in Human Cells

    Bhowmick, Rahul, Thakur, Roshan Singh, Venegas, A. B., Liu, Ying, Nilsson, Jakob, Barisic, Marin & Hickson, Ian David, 2019, In : Current Biology. 29, 7, p. 1232-1242.e5

    Research output: Contribution to journalJournal articleResearchpeer-review

  131. Published

    The Proteome of Primary Prostate Cancer

    Iglesias Gato, Diego, Wikström, P., Tyanova, S., Lavallee, C., Thysell, E., Carlsson, J., Hägglöf, C., Cox, J., Andrén, O., Stattin, P., Egevad, L., Widmark, A., Bjartell, A., Collins, C. C., Bergh, A., Geiger, T., Mann, Matthias & Flores-Morales, A., May 2016, In : European Urology. 69, 5, p. 942-952 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  132. Published

    The PI3-kinase isoform p110δ is essential for cell transformation induced by the D816V mutant of c-Kit in a lipid-kinase-independent manner

    Sun, J., Mohlin, S., Lundby, Alicia, Kazi, J. U., Hellman, U., Påhlman, S., Olsen, Jesper Velgaard & Rönnstrand, L., 11 Nov 2013, In : Oncogene.

    Research output: Contribution to journalJournal articleResearchpeer-review

  133. Published

    The Ndc80 internal loop is required for recruitment of the Ska complex to establish end-on microtubule attachment to kinetochores

    Zhang, G., Kelstrup, C. D., Hu, X., Hansen, M. J. K., Singleton, M. R., Olsen, Jesper Velgaard & Nilsson, Jakob, 2012, In : Journal of Cell Science. p. 3243-3253 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  134. Published

    The NBS1-Treacle complex controls ribosomal RNA transcription in response to DNA damage

    Larsen, D. H., Hari, F., Clapperton, J. A., Gwerder, M., Gutsche, K., Altmeyer, M., Jungmichel, S., Toledo Lazaro, Luis Ignacio, Fink, D., Rask, M., Grøfte, M., Lukas, Claudia, Nielsen, Michael Lund, Smerdon, S. J., Lukas, Jiri & Stucki, M., Aug 2014, In : Nature Cell Biology. 16, 8, p. 792-803 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  135. Published

    The Interplay of Non-coding RNAs and X Chromosome Inactivation in Human Disease

    Russo, Francesco, De Masi, F., Brunak, Søren & Belling, Kirstine G, 2018, Systems Biology. Rajewsky, N., Jurga, S. & Barciszewski, J. (eds.). Springer, p. 229-238 (RNA Technologies).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  136. Published

    The Influence of Age and Sex on Genetic Associations with Adult Body Size and Shape: A Large-Scale Genome-Wide Interaction Study

    Winkler, T. W., Justice, A. E., Graff, M., Barata, L., Feitosa, M. F., Chu, S., Czajkowski, J., Esko, T., Fall, T., Oskari Kilpeläinen, Tuomas, Lu, Y., Mägi, R., Mihailov, E., Pers, T. H., Rüeger, S., Teumer, A., Ehret, G. B., Ferreira, T., Heard-Costa, N. L., Karjalainen, J., Lagou, V., Mahajan, A., Neinast, M. D., Prokopenko, I., Simino, J., Teslovich, T. M., Jansen, R., Westra, H., White, C. C., Absher, D., Ahluwalia, T. V. S., Ahmad, S., Albrecht, E., Alves, A. C., Bragg-Gresham, J. L., de Craen, A. J. M., Bis, J. C., Bonnefond, A., Boucher, G., Banasik, Karina, Grarup, Niels, Hansen, Torben, Jørgensen, T., Krarup, N. T., Linneberg, Allan René, Ribel-Madsen, R., Sparsø, T. H., Melbye, Mads, Pedersen, Oluf Borbye, Sørensen, Thorkild I.A. & CHARGE Consortium, C. C., 1 Oct 2015, In : P L o S Genetics. 11, 10, p. 1-42 42 p., e1005378.

    Research output: Contribution to journalJournal articleResearchpeer-review

  137. Published

    The ISCB Student Council Internship Program: Expanding computational biology capacity worldwide

    Anupama, J., Francescatto, M., Rahman, F., Fatima, N., DeBlasio, D., Shanmugam, A. K., Satagopam, V., Santos, A., Kolekar, P., Michaut, M. & Guney, E., 2018, In : PLOS Computational Biology. 14, 1, p. 1-12 e1005802.

    Research output: Contribution to journalJournal articleResearchpeer-review

  138. Published

    The Ebola Virus Nucleoprotein Recruits the Host PP2A-B56 Phosphatase to Activate Transcriptional Support Activity of VP30

    Kruse, Thomas, Biedenkopf, N., Hertz, Emil Peter Thrane, Dietzel, E., Stalmann, G., López-Méndez, B., Davey, N. E., Nilsson, Jakob & Becker, S., 4 Jan 2018, In : Molecular Cell. 69, 1, p. 136-145 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  139. Published

    The Drosophila Microtubule-Associated Protein Mars Stabilizes Mitotic Spindles by Crosslinking Microtubules through Its N-Terminal Region

    Zhang, G., Beati, H., Nilsson, Jakob & Wodarz, A., 4 Apr 2013, In : P L o S One. 8, 4, p. e60596 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  140. Published

    The DNA damage- and transcription-associated protein Paxip1 controls thymocyte development and emigration

    Callen, E., Faryabi, R. B., Daniel, J. A., Nussenzweig, A., Luckey, M., Park, J., Hao, B., Krangel, M. S., Yang, W., Peng, W., Sun, H., Dressler, G., Chi, H. & Ge, K., 2012, In : Immunity. 37, 6, p. 971-985 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  141. Published

    The DNA damage checkpoint precedes activation of ARF in response to escalating oncogenic stress during tumorigenesis

    Evangelou, K., Bartkova, J., Kotsinas, A., Pateras, I. S., Liontos, M., Velimezi, G., Kosar, M., Liloglou, T., Trougakos, I. P., Dyrskjot, L., Andersen, C. L., Papaioannou, M., Drosos, Y., Papafotiou, G., Hodny, Z., Sosa-Pineda, B., Wu, X., Klinakis, A., Ørntoft, T. F., Lukas, Jiri, Bartek, J. & Gorgoulis, V. G., 1 Nov 2013, In : Cell Death and Differentiation. 20, 11, p. 1485-1497 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  142. Published

    The Coming Age of Complete, Accurate, and Ubiquitous Proteomes

    Mann, Matthias, Kulak, N. A., Nagaraj, N. & Cox, J., 21 Feb 2013, In : Molecular Cell. 49, 4, p. 583-590 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  143. Published

    The Chromatin Scaffold Protein SAFB1 Renders Chromatin Permissive for DNA Damage Signaling

    Altmeyer, M., Toledo Lazaro, Luis Ignacio, Gudjónsson, Thorkell, Grøfte, M., Rask, M., Lukas, Claudia, Akimov, V., Blagoev, B., Bartek, J. & Lukas, Jiri, 24 Oct 2013, In : Molecular Cell. 52, 2, p. 206-220

    Research output: Contribution to journalJournal articleResearchpeer-review

  144. Published

    The Case for Proteomics and Phospho-Proteomics in Personalized Cancer Medicine

    Doll, S., Gnad, F. & Mann, Matthias, 2019, In : Proteomics - Clinical Applications. 13, 2, 10 p., e1800113.

    Research output: Contribution to journalReviewResearchpeer-review

  145. Published

    The CMG Helicase Bypasses DNA-Protein Cross-Links to Facilitate Their Repair

    Sparks, J. L., Chistol, G., Gao, A. O., Räschle, M., Larsen, Nicolai Balle, Mann, Matthias, Duxin, Julien & Walter, J. C., 2019, In : Cell. 176, 1-2, p. 167-181.e21 36 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  146. Published

    The AID-induced DNA damage response in chromatin

    Daniel, J. A. & Nussenzweig, A., 9 May 2013, In : Molecular Cell. 50, 3, p. 309-21 13 p.

    Research output: Contribution to journalReviewResearchpeer-review

  147. Published

    The AAA-ATPase VCP/p97 promotes 53BP1 recruitment by removing L3MBTL1 from DNA double-strand breaks

    Acs, K., Luijsterburg, M. S., Ackermann, Leena, Salomons, F. A., Hoppe, T. & Dantuma, N. P., 27 Nov 2011, In : Nature Structural & Molecular Biology. 18, 12, p. 1345-50 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  148. Published

    The bio.tools registry of software tools and data resources for the life sciences

    Ison, J., Ienasescu, H., Chmura, Piotr Jaroslaw, Rydza, E., Ménager, H., Kalaš, M., Schwämmle, V., Grüning, B., Beard, N., Lopez, R., Duvaud, S., Stockinger, H., Persson, B., Vařeková, R. S., Raček, T., Vondrášek, J., Peterson, H., Salumets, A., Jonassen, I., Hooft, R., Nyrönen, T., Valencia, A., Capella, S., Gelpí, J., Zambelli, F., Savakis, B., Leskošek, B., Rapacki, K., Blanchet, C., Jimenez, R., Oliveira, A., Vriend, G., Collin, O., van Helden, J., Løngreen, P. & Brunak, Søren, 2019, In : Genome Biology. 20, 1, 4 p., 164.

    Research output: Contribution to journalLetterResearchpeer-review

  149. Published

    The 3rd DBCLS BioHackathon: improving life science data integration with semantic Web technologies

    Katayama, T., Wilkinson, M. D., Micklem, G., Kawashima, S., Yamaguchi, A., Nakao, M., Yamamoto, Y., Okamoto, S., Oouchida, K., Chun, H., Aerts, J., Afzal, H., Antezana, E., Arakawa, K., Aranda, B., Belleau, F., Bolleman, J., Bonnal, R. J., Chapman, B., Cock, P., Eriksson, T., Gordon, P., Goto, N., Hayashi, K., Horn, H., Ishiwata, R., Kaminuma, E., Kasprzyk, A., Kawaji, H., Kido, N., Kim, Y. J., Kinjo, A. R., Konishi, F., Kwon, K., Labarga, A., Lamprecht, A., Lin, Y., Lindenbaum, P., McCarthy, L., Morita, H., Murakami, K., Nagao, K., Nishida, K., Nishimura, K., Nishizawa, T., Ogishima, S., Ono, K., Oshita, K., Park, K., Prins, P., Saito, T. L., Samwald, M., Satagopam, V. P., Shigemoto, Y., Smith, R., Splendiani, A., Sugawara, H., Taylor, J., Vos, R., Withers, D., Yamasaki, C., Zmasek, C. M., Kawamoto, S., Okubo, K., Asai, K. & Takagi, T., 11 Feb 2013, In : Journal of Biomedical Semantics. 4, 1, p. 6 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  150. Published

    Text mining for biology--the way forward: opinions from leading scientists

    Altman, R. B., Bergman, C. M., Blake, J., Blaschke, C., Cohen, A., Gannon, F., Grivell, L., Hahn, U., Hersh, W., Hirschman, L., Jensen, Lars Juhl, Krallinger, M., Mons, B., O'Donoghue, S. I., Peitsch, M. C., Rebholz-Schuhmann, D., Shatkay, H. & Valencia, A., 2008, In : Genome Biology (Online Edition). 9 Suppl 2, p. S7

    Research output: Contribution to journalJournal articleResearchpeer-review

  151. Published

    Ten simple rules for getting help from online scientific communities

    Dall'olio, G. M., Marino, J., Schubert, M., Keys, K. L., Stefan, M. I., Gillespie, C. S., Poulain, P., Shameer, K., Sugar, R., Invergo, B. M., Jensen, Lars Juhl, Bertranpetit, J. & Laayouni, H., 1 Sep 2011, In : P L o S Computational Biology. 7, 9, p. e1002202

    Research output: Contribution to journalJournal articleResearchpeer-review

  152. Published

    Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation

    Emdal, Kristina Bennet, Pedersen, A., Bekker-Jensen, D. B., Tsafou, K. P., Horn, H., Lindner, S., Schulte, J. H., Eggert, A., Jensen, Lars Juhl, Francavilla, C. & Olsen, Jesper Velgaard, 2015, In : Science signaling. 8, 374, ra40.

    Research output: Contribution to journalJournal articleResearchpeer-review

  153. Published

    Temporal disease trajectories condensed from population-wide registry data covering 6.2 million patients

    Jensen, A. B., Moseley, Pope Lloyd, Oprea, T. I., Ellesøe, S. G., Eriksson, Robert, Schmock, H., Jensen, P. B., Jensen, Lars Juhl & Brunak, Søren, 24 Jun 2014, In : Nature Communications. 5, 10 p., 4022.

    Research output: Contribution to journalJournal articleResearchpeer-review

  154. Published

    Targeted proteomics for metabolic pathway optimization: application to terpene production

    Redding-Johanson, A. M., Batth, Tanveer Singh, Chan, R., Krupa, R., Szmidt, H. L., Adams, P. D., Keasling, J. D., Lee, T. S., Mukhopadhyay, A. & Petzold, C. J., Mar 2011, In : Metabolic Engineering. 13, 2, p. 194-203 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  155. Published

    Tail Structure and Dynamics

    Bhatt, Shweta, Leiman, P. G. & Taylor, Nicholas M I, 2019, Reference Module in Life Sciences. Elsevier

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearch

  156. 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

  157. Published

    TRAIP is a PCNA-binding ubiquitin ligase that protects genome stability after replication stress

    Hoffmann, Saskia, Smedegaard, S., Nakamura, Kyosuke, Mortuza, G. B., Räschle, M., Ibañez de Opakua, A., Oka, Y., Feng, Y., Blanco, F. J., Mann, Matthias, Montoya, Guillermo, Groth, Anja, Bekker-Jensen, Simon Holst & Mailand, Niels, 4 Jan 2016, In : The Journal of Cell Biology. 212, 1, p. 63-75

    Research output: Contribution to journalJournal articleResearchpeer-review

  158. Published

    TRAIP drives replisome disassembly and mitotic DNA repair synthesis at sites of incomplete DNA replication

    Sonneville, R., Bhowmick, Rahul, Hoffmann, Saskia, Mailand, Niels, Hickson, Ian David & Labib, K., 2019, In : eLife. 8, 19 p., e48686.

    Research output: Contribution to journalJournal articleResearchpeer-review

  159. Published

    TOPBP1 regulates RAD51 phosphorylation and chromatin loading and determines PARP inhibitor sensitivity

    Moudry, P., Watanabe, K., Wolanin, K. M., Bartkova, J., Wassing, I. E., Watanabe, S., Strauss, R., Pedersen, R. T., Østergaard, Vibe Hallundbæk, Lisby, Michael, Andújar-Sánchez, M., Maya-Mendoza, A., Esashi, F., Lukas, Jiri & Bartek, J., 2016, In : The Journal of Cell Biology. 212, 3, p. 281-288 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  160. Published

    TISSUES 2.0: an integrative web resource on mammalian tissue expression

    Palasca, O., Santos, A., Stolte, C., Gorodkin, Jan & Jensen, Lars Juhl, 2018, In : Database. 2018, 1, p. 1-12

    Research output: Contribution to journalJournal articleResearchpeer-review

  161. Published

    TIN-X: target importance and novelty explorer

    Cannon, D. C., Yang, J. J., Mathias, S. L., Ursu, O., Mani, S., Waller, A., Schürer, S. C., Jensen, Lars Juhl, Sklar, L. A., Bologa, C. G. & Oprea, T. I., 15 Aug 2017, In : Bioinformatics. 33, 16, p. 2601-2603 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  162. Published

    TIMP-1 increases expression and phosphorylation of proteins associated with drug resistance in breast cancer cells

    Hekmat, O., Munk, S., Fogh, L., Yadav, R., Francavilla, C., Horn, H., Würtz, S. Ø., Schrohl, A., Damsgaard, B., Romer, M. U., Belling, Kirstine G, Jensen, N. F., Gromova, I., Bekker-Jensen, D. B., Moreira, José, Jensen, Lars Juhl, Gupta, R., Lademann, U. A., Brünner, Nils, Olsen, Jesper Velgaard & Stenvang, Jan, 5 Aug 2013, In : Journal of Proteome Research. 12, 9, p. 4136-4151 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  163. Published

    TH2BS11ph histone mark is enriched in the unsynapsed axes of the XY body and predominantly associates with H3K4me3-containing genomic regions in mammalian spermatocytes

    Mahadevan, I. A., Pentakota, Satya Krishna, Roy, R., Bhaduri, U. & Satyanarayana Rao, M. R., 2019, In : Epigenetics & Chromatin. 12, 1, 23 p., 53.

    Research output: Contribution to journalJournal articleResearchpeer-review

  164. Published

    TGIF1 is a negative regulator of MLL-rearranged acute myeloid leukemia

    Willer, A., Jakobsen, J. S., Ohlsson, E., Rapin, N., Waage, J., Billing, M., Bullinger, L., Karlsson, S. & Porse, Bo Torben, 2015, In : Leukemia. 29, p. 1018-31 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  165. Published

    TEMPORAL ORDER OF DISEASE PAIRS AFFECTS SUBSEQUENT DISEASE TRAJECTORIES: THE CASE OF DIABETES AND SLEEP APNEA

    zmw894, zmw894, Westergaard, David, Jensen, A. B., Groop, L. & Brunak, Søren, 2016, In : Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 22, p. 380-389 10 p.

    Research output: Contribution to journalConference articleResearchpeer-review

  166. 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

  167. Published

    Systems-wide analysis of BCR signalosomes and downstream phosphorylation and ubiquitylation

    Satpathy, S., Wagner, S. A., Beli, P., Gupta, R., Kristiansen, T. A., Malinova, D., Francavilla, C., Tolar, P., Bishop, G. A., Hostager, B. S. & Choudhary, Chuna Ram, 2015, In : Molecular Systems Biology. 11, 6, 810.

    Research output: Contribution to journalJournal articleResearchpeer-review

  168. Published

    Systems-wide Analysis of Serine ADP-Ribosylation Reveals Widespread Occurrence and Site-Specific Overlap with Phosphorylation

    Buch-Larsen, Sara Charlotte, Hendriks, Ivo Alexander, Lyon, D., Jensen, Lars Juhl & Nielsen, Michael Lund, 2018, In : Cell Reports. 24, 9, p. 2493-2505

    Research output: Contribution to journalJournal articleResearchpeer-review

  169. Published

    Systems biology approach identifies the kinase Csnk1a1 as a regulator of the DNA damage response in embryonic stem cells

    Carreras Puigvert, J., von Stechow, L., Siddappa, R., Pines, A., Bahjat, M., Haazen, L. C. J. M., Olsen, Jesper Velgaard, Vrieling, H., Meerman, J. H. N., Mullenders, L. H. F., van de Water, B. & Danen, E. H. J., 2013, In : Science Signaling. 6, 259, p. ra5 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  170. Published

    Systems Analysis for Interpretation of Phosphoproteomics Data

    Munk, S., Refsgaard, J. C. & Olsen, Jesper Velgaard, 2016, Phospho-Proteomics: Methods and Protocols. Stechow, L. V. (ed.). Springer, Vol. 1355. p. 341-60 20 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  171. Published

    Systems Analyses Reveal Shared and Diverse Attributes of Oct4 Regulation in Pluripotent Cells

    Ding, L., Paszkowski-Rogacz, M., Winzi, M., Chakraborty, D., Theis, M., Singh, S., Ciotta, G., Poser, I., Roguev, A., Chu, W. K., Choudhary, Chuna Ram, Mann, Matthias, Stewart, A. F., Krogan, N. & Buchholz, F., 26 Aug 2015, In : Cell Systems. 1, 2, p. 141-151 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  172. Published

    Systematic identification of proteins that elicit drug side effects

    Kuhn, M., Al Banchaabouchi, M., Campillos, M., Jensen, Lars Juhl, Gross, C., Gavin, A. & Bork, P., 30 Apr 2013, In : Molecular Systems Biology. 9, p. 663 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  173. Published

    Systematic Analysis of the Crosstalk between Mitosis and DNA Damage by a Live Cell siRNA Screen

    Pedersen, R. S., 2014, Faculty of Science, University of Copenhagen. 143 p.

    Research output: Book/ReportPh.D. thesisResearch

  174. Published

    System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation

    Rigbolt, K. T. G., Prokhorova, T., Akimov, V., Løkkegaard, Jeanette, Johansen, P. T., Kratchmarova, I., Kassem, M. S. E., Mann, Matthias, Olsen, Jesper Velgaard & Blagoev, B., 2011, In : Science Signaling. 4, 164, p. rs3

    Research output: Contribution to journalJournal articleResearchpeer-review

  175. Published

    System-wide Analysis of SUMOylation Dynamics in Response to Replication Stress Reveals Novel Small Ubiquitin-like Modified Target Proteins and Acceptor Lysines Relevant for Genome Stability

    Xiao, Z., Chang, J., Hendriks, I. A., Sigurdsson, J. O., Olsen, Jesper Velgaard & Vertegaal, A. C. O., 1 May 2015, In : Molecular and Cellular Proteomics. 14, 5, p. 1419-1434

    Research output: Contribution to journalJournal articleResearchpeer-review

  176. Published

    Synthetic lethality between murine DNA repair factors XLF and DNA-PKcs is rescued by inactivation of Ku70

    Xing, M., Bjørås, M., Daniel, J. A., Alt, F. W. & Oksenych, V., Sep 2017, In : DNA Repair. 57, p. 133-138 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  177. Published

    Synergistic inhibition of the APC/C by the removal of APC15 in HCT116 cells lacking UBE2C

    Garvanska, Dimitriya Hristoforova, Larsen, M. S. Y. & Nilsson, Jakob, 2 Sep 2016, In : Biology Open. 5, p. 1441-1448

    Research output: Contribution to journalJournal articleResearchpeer-review

  178. Published

    Sweet google O’ mine - The importance of online search engines for MS-facilitated, database-independent identification of peptide-encoded book prefaces: A EUPA YPIC challenge entry

    Hogrebe, A. & Jersie-Christensen, R. R., 2019, In : EuPA Open Proteomics. 22-23, p. 14-18 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  179. Published

    Survival prediction in intensive-care units based on aggregation of long-term disease history and acute physiology: a retrospective study of the Danish National Patient Registry and electronic patient records

    Nielsen, Annelaura Bach, Thorsen-Meyer, H. C., Belling, Kirstine G, Nielsen, Anna Pors, Thomas, C. E., Chmura, Piotr Jaroslaw, Lademann, M., Moseley, Pope Lloyd, Heimann, M., Dybdahl, L., Spangsege, L., Hulsen, P., Perner, Anders & Brunak, Søren, 2019, In : The Lancet Digital Health. 1, 2, p. e78-e89 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  180. Published

    Suppressor of cytokine signaling 2 (SOCS2) deletion protects against multiple low dose streptozotocin-induced type 1 diabetes in adult male mice

    Alkharusi, A., Mirecki-Garrido, M., Ma, Z., Flores-Morales, A., Nyström, T., Castrillo, A., Bjorklund, A., Norstedt, G. & Fernández-Perez, L., Apr 2016, In : Hormone Molecular Biology and Clinical Investigation. 26, 1, p. 67-76 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  181. Published

    Suppressor of Cytokine Signaling 6 (SOCS6) Negatively Regulates Flt3 Signal Transduction through Direct Binding to Phosphorylated Tyrosines 591 and 919 of Flt3

    Kazi, J. U., Sun, J., Phung, B., Zadjali, F., Flores Morales, A. & Rönnstrand, L., 2012, In : The Journal of Biological Chemistry. 287, 43, p. 36509-17 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  182. Published

    Suppression of water as a nucleophile in Candida antarctica lipase B catalysis

    Larsen, M. W., Zielinska, D. F., Martinelle, M., Hidalgo, A., Jensen, Lars Juhl, Bornscheuer, U. T. & Hult, K., 12 Apr 2010, In : ChemBioChem. 11, 6, p. 796-801 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  183. E-pub ahead of print

    Structures of the Cmr-β Complex Reveal the Regulation of the Immunity Mechanism of Type III-B CRISPR-Cas

    Sofos, N., Feng, M., Stella, Stefano, Pape, T., Fuglsang, Anders, Lin, Jinzhong, Huang, Q., Li, Y., She, Q. & Montoya, Guillermo, 24 Jul 2020, In : Molecular Cell.

    Research output: Contribution to journalJournal articleResearchpeer-review

  184. Published

    Structures of down syndrome kinases, DYRKs, reveal mechanisms of kinase activation and substrate recognition

    Soundararajan, M., Roos, A. K., Savitsky, P., Filippakopoulos, P., Kettenbach, A. N., Olsen, Jesper Velgaard, Gerber, S., Eswaran, J., Knapp, S. & Elkins, J. M., 4 Jun 2013, In : Structure. 21, 6, p. 986-996 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  185. Published

    Structure-based discovery of novel US28 small molecule ligands with different modes of action

    Lückmann, Michael, Amarandi, R., Papargyri, N., Jakobsen, M. H., Ulven, Elisabeth Rexen, Jensen, Lars Juhl, Pui, A., Schwartz, Thue W., Rosenkilde, Mette & Frimurer, Thomas Michael, 2017, In : Chemical Biology & Drug Design. 89, 3, p. 289–296

    Research output: Contribution to journalJournal articleResearchpeer-review

  186. Published

    Structure of the T4 baseplate and its function in triggering sheath contraction

    Taylor, Nicholas M I, Prokhorov, N. S., Guerrero-Ferreira, R. C., Shneider, M. M., Browning, C., Goldie, K. N., Stahlberg, H. & Leiman, P. G., 2016, In : Nature. 533, 7603, p. 346-352 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  187. Published

    Structure of the I-SceI nuclease complexed with its dsDNA target and three catalytic metal ions

    Prieto, J., Redondo, P., Merino, N., Villate, M., Montoya, Guillermo, Blanco, F. J. & Molina, Rafael, Jun 2016, In : Acta crystallographica. Section F, Structural biology communications. 72, Pt 6, p. 473-9 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  188. Published

    Structure of the Cpf1 endonuclease R-loop complex after target DNA cleavage

    Stella, Stefano, Alcón, P. & Montoya, Guillermo, 22 Jun 2017, In : Nature. 546, 7659, p. 559-563 5 p.

    Research output: Contribution to journalLetterResearchpeer-review

  189. Published

    Structure of p15PAF-PCNA complex and implications for clamp sliding during DNA replication and repair

    De Biasio, A., de Opakua, A. I., Mortuza, G. B., Molina, Rafael, Cordeiro, T. N., Castillo, F., Villate, M., Merino, N., Delgado, S., Gil-Cartón, D., Luque, I., Diercks, T., Bernadó, P., Montoya, Guillermo & Blanco, F. J., 12 Mar 2015, In : Nature Communications. 6, p. 1-12 6439.

    Research output: Contribution to journalJournal articleResearchpeer-review

  190. Published

    Structure of dimeric and tetrameric complexes of the BAR domain protein PICK1 determined by small-angle X-Ray scattering

    Karlsen, M. L., Thorsen, Thor Seneca, Johner, N., Ammendrup-Johnsen, I., Erlendsson, Simon, Tian, X., Simonsen, J. B., Hoiberg-Nielsen, R., Christensen, N. M., Khelashvili, G., Streicher, W., Teilum, Kaare, Vestergaard, Bente, Weinstein, H., Gether, Ulrik, Arleth, Lise & Madsen, Kenneth Lindegaard, 7 Jul 2015, In : Structure. 23, 7, p. 1258-1270 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  191. Published

    Structure of a Blinkin-BUBR1 complex reveals an interaction crucial for kinetochore-mitotic checkpoint regulation via an unanticipated binding Site

    Bolanos-Garcia, V. M., Lischetti, T., Matak-Vinković, D., Cota, E., Simpson, P. J., Chirgadze, D. Y., Spring, D. R., Robinson, C. V., Nilsson, Jakob & Blundell, T. L., 9 Nov 2011, In : Structure. 19, 11, p. 1691-700 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  192. Published

    Structure of Csx1-cOA4 complex reveals the basis of RNA decay in Type III-B CRISPR-Cas

    Molina, Rafael, Stella, Stefano, Feng, M., Sofos, N., Jauniskis, V., Pozdnyakova, I., López-Méndez, B., She, Q. & Montoya, Guillermo, 2019, In : Nature Communications. 10, 14 p., 4302.

    Research output: Contribution to journalJournal articleResearchpeer-review

  193. Published

    Structure and dynamics of mesophilic variants from the homing endonuclease I-DmoI

    Alba, J., Marcaida, M. J., Prieto, J., Montoya, Guillermo, Molina, Rafael & D'Abramo, M., Dec 2017, In : Journal of Computer - Aided Molecular Design. 31, 12, p. 1063-1072 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  194. Published

    Structure and Interactions of a Dimeric Variant of sHIP, a Novel Virulence Determinant of Streptococcus pyogenes

    Diehl, C., Wisniewska, M., Frick, I., Streicher, W., Björck, L., Malmström, J. & Wikström, M., 2016, In : Frontiers in Microbiology. 7, 9 p., 95.

    Research output: Contribution to journalJournal articleResearchpeer-review

  195. Published

    Structure and Function of the Branched Receptor-Binding Complex of Bacteriophage CBA120

    Plattner, M., Shneider, M. M., Arbatsky, N. P., Shashkov, A. S., Chizhov, A. O., Nazarov, S., Prokhorov, N. S., Taylor, Nicholas M I, Buth, S. A., Gambino, Michela, Gencay, Y. E., Brøndsted, Lone, Kutter, E. M., Knirel, Y. A. & Leiman, P. G., 2019, In : Journal of Molecular Biology. 431, 19, p. 3718-3739

    Research output: Contribution to journalJournal articleResearchpeer-review

  196. Published

    Structural insights into the recognition of phosphopeptide by the FHA domain of kanadaptin

    Xu, Q., Deller, M. C., Nielsen, T. K., Grant, J. C., Lesley, S. A., Elsliger, M., Deacon, A. M. & Wilson, I. A., Sep 2014, In : PLOS ONE. 9, 9, 9 p., e107309.

    Research output: Contribution to journalJournal articleResearchpeer-review

  197. Published

    Structural basis for c-KIT inhibition by the suppressor of cytokine signaling 6 (SOCS6) ubiquitin ligase

    Zadjali, F., Pike, A. C. W., Vesterlund, M., Sun, J., Wu, C., Li, S. S. C., Rönnstrand, L., Knapp, S., Bullock, A. N. & Flores Morales, A., 2011, In : Journal of Biological Chemistry. 286, 1, p. 480-90 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  198. Published

    Structural basis for KV7.1/KCNEx interactions in the IKs channel complex

    Lundby, Alicia, Tseng, G. & Schmitt, Nicole, 2010, In : Heart Rhythm. 7, 5, p. 708-713

    Research output: Contribution to journalJournal articleResearchpeer-review

  199. Published

    Structural Basis of BRCC36 Function in DNA Repair and Immune Regulation

    Rabl, J., Bunker, R. D., Schenk, A. D., Cavadini, S., Gill, M. E., Abdulrahman, W., Andrés-Pons, A., Luijsterburg, M. S., Ibrahim, A. F. M., Branigan, E., Aguirre, J. D., Marceau, A. H., Guérillon, C., Bouwmeester, T., Hassiepen, U., Peters, A. H. F. M., Renatus, M., Gelman, L., Rubin, S. M., Mailand, Niels, van Attikum, H., Hay, R. T. & Thomä, N. H., 2019, In : Molecular Cell. 75, 3, p. 483-497.e9 25 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  200. Published

    Structural Analysis of a Complex between Small Ubiquitin-like Modifier 1 (SUMO1) and the ZZ Domain of CREB-binding Protein (CBP/p300) Reveals a New Interaction Surface on SUMO

    Diehl, C., Akke, M., Bekker-Jensen, Simon Holst, Mailand, Niels, Streicher, W. & Wikström, M., 10 Jun 2016, In : Journal of Biological Chemistry. 291, 24, p. 12658-12672 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  201. Published

    Status of large-scale analysis of post-translational modifications by mass spectrometry

    Olsen, Jesper Velgaard & Mann, Matthias, 1 Nov 2013, In : Molecular & Cellular Proteomics. 12, p. 3444-52

    Research output: Contribution to journalJournal articleResearchpeer-review

  202. Published

    Standardized benchmarking in the quest for orthologs

    Altenhoff, A. M., Boeckmann, B., Capella-Gutierrez, S., Dalquen, D. A., DeLuca, T., Forslund, K., Huerta-Cepas, J., Linard, B., Pereira, C., Pryszcz, L. P., Schreiber, F., da Silva, A. S., Szklarczyk, D., Train, C., Bork, P., Lecompte, O., von Mering, C., Xenarios, I., Sjölander, K., Jensen, Lars Juhl, Martin, M. J., Muffato, M., Gabaldón, T., Lewis, S. E., Thomas, P. D., Sonnhammer, E., Dessimoz, C. & Quest for Orthologs consortium, Q. F. O. C., May 2016, In : Nature Methods. 13, p. 425-30 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  203. Published

    Stable MCC binding to the APC/C is required for a functional spindle assembly checkpoint

    bmk286, bmk286 & Nilsson, Jakob, 25 Jan 2014, In : E M B O Reports. 15, p. 264-272

    Research output: Contribution to journalJournal articleResearchpeer-review

  204. Published

    Stabilization of chromatin topology safeguards genome integrity

    Ochs, F., Karemore, Gopal, Miron, E., Brown, J., Sedlackova, Hana, Rask, M., Lampe, M., Buckle, V., Schermelleh, L., Lukas, Jiri & Lukas, Claudia, 2019, In : Nature. 574, 7779, p. 571-574 4 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  205. Published

    Specifying RNA-Binding Regions in Proteins by Peptide Cross-Linking and Affinity Purification

    Mullari, Meeli, Lyon, D., Jensen, Lars Juhl & Nielsen, Michael Lund, 2017, In : Journal of Proteome Research. 16, 8, p. 2762-2772 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  206. Published

    Specificity and commonality of the phosphoinositide-binding proteome analyzed by quantitative mass spectrometry

    Jungmichel, S., Sylvestersen, K. B., Choudhary, Chuna Ram, Nguyen, S., Mann, Matthias & Nielsen, Michael Lund, 13 Feb 2014, In : Cell Reports. 6, 3, p. 578-91 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  207. Published

    Specific CLK inhibitors from a novel chemotype for regulation of alternative splicing

    Fedorov, O., Huber, K., Eisenreich, A., Filippakopoulos, P., King, O., Bullock, A. N., Szklarczyk, D., Jensen, Lars Juhl, Fabbro, D., Trappe, J., Rauch, U., Bracher, F. & Knapp, S., 2011, In : Chemistry & Biology. 18, 1, p. 67-76 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  208. Published

    Species identification of archaeological skin objects from Danish bogs: comparison between mass spectrometry-based peptide sequencing and microscopy-based methods

    Brandt, Luise Ørsted, Schmidt, A. L., Mannering, U., Sarret, M., Kelstrup, C., Olsen, Jesper Velgaard & Cappellini, Enrico, 2014, In : PloS one. 9, 9, 10 p., e106875.

    Research output: Contribution to journalJournal articleResearchpeer-review

  209. Published

    SnapShot: S-Phase Entry and Exit

    Burgess, A., Vuong, J., Marzec, K. A., de Lichtenberg, U. N., O'Donoghue, S. I. & Jensen, Lars Juhl, 2019, In : Cell. 179, 3, p. 802-802.e1 2 p.

    Research output: Contribution to journalComment/debateResearchpeer-review

  210. Published

    Small Angle X-Ray Scattering Studies of Mitochondrial Glutaminase C Reveal Extended Flexible Regions, and Link Oligomeric State with Enzyme Activity

    Møller, M., Nielsen, S. S., Ramachandran, S., Li, Y., Tria, G., Streicher, W., Petoukhov, M. V., Cerione, R. A., Gillilan, R. E. & Vestergaard, Bente, 30 Sep 2013, In : P L o S One. 8, 9, e74783.

    Research output: Contribution to journalJournal articleResearchpeer-review

  211. Published

    Sleep-wake cycles drive daily dynamics of synaptic phosphorylation

    Brüning, F., Noya, S. B., Bange, T., Koutsouli, S., Rudolph, J. D., Tyagarajan, S. K., Cox, J., Mann, Matthias, Brown, S. A. & Robles, M. S., 2019, In : Science (New York, N.Y.). 366, 6462, eaav3617 .

    Research output: Contribution to journalJournal articleResearchpeer-review

  212. Published

    Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation

    Hendriks, Ivo Alexander, Lyon, D., Young, C., Jensen, Lars Juhl, Vertegaal, A. C. O. & Nielsen, Michael Lund, Mar 2017, In : Nature Structural and Molecular Biology. 24, 3, p. 325-336 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  213. Published

    Site-specific characterization of endogenous SUMOylation across species and organs

    Hendriks, Ivo Alexander, Lyon, D., Su, D., Skotte, Niels Henning, Daniel, J. A., Jensen, Lars Juhl & Nielsen, Michael Lund, 2018, In : Nature Communications. 9, p. 1-17 2456.

    Research output: Contribution to journalJournal articleResearchpeer-review

  214. Published

    Single muscle fiber proteomics reveals unexpected mitochondrial specialization

    Murgia, M., Nagaraj, N., Deshmukh, Atul Shahaji, Zeiler, M., Cancellara, P., Moretti, I., Reggiani, C., Schiaffino, S. & Mann, Matthias, 1 Mar 2015, In : E M B O Reports. 16, 3, p. 387-95 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  215. Published

    Simple and Reproducible Sample Preparation for Single-Shot Phosphoproteomics with High Sensitivity

    Jersie-Christensen, R. R., Sultan, A. & Olsen, Jesper Velgaard, 2016, Phospho-Proteomics: Methods and Protocols. Stechow, L. V. (ed.). p. 251-60 10 p. (Methods in molecular biology (Clifton, N.J.), Vol. 1355).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  216. Published

    SignalP 5.0 improves signal peptide predictions using deep neural networks

    Armenteros, J. J. A., Tsirigos, Konstantinos, Sønderby, C. K., Petersen, T. N., Winther, Ole, Brunak, Søren, von Heijne, G. & Nielsen, H., 18 Feb 2019, In : Nature Biotechnology. 37, 4, p. 420-423

    Research output: Contribution to journalJournal articleCommunication

  217. Published

    SignalP 4.0: discriminating signal peptides from transmembrane regions

    Petersen, T. N., Brunak, Søren, von Heijne, G. & Nielsen, H., 2011, In : Nature Methods. 8, 10, p. 785-6 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  218. Published

    Shielding broken DNA for a quick fix

    Lukas, Jiri & Lukas, Claudia, 8 Feb 2013, In : Science. 339, 6120, p. 652-653 2 p.

    Research output: Contribution to journalReviewResearchpeer-review

  219. Published

    Sex differences in text-mined possible adverse drug events associated with drugs for psychosis

    Sørup, F. K. H., Eriksson, Robert, Westergaard, David, Hallas, J., Brunak, Søren & Andersen, Stig Ejdrup, 2020, In : Journal of Psychopharmacology. 34, 5, p. 532-539 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  220. Published

    Serological assessment of neutrophil elastase activity on elastin during lung ECM remodeling

    Kristensen, J. H., Karsdal, M. A., Sand, J. M. B., Willumsen, N., Diefenbach, C., Svensson, B., Hägglund, Per Mårten & Oersnes-Leeming, D. J., 3 May 2015, In : BMC Pulmonary Medicine. 15, 1, 53.

    Research output: Contribution to journalJournal articleResearchpeer-review

  221. Published

    Sequencing of the First Draft of the Human Acetylome

    Choudhary, Chuna Ram & Mann, Matthias, 1 Jun 2020, In : Clinical Chemistry. 66, 6, p. 852-853 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  222. 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

  223. Published

    Sequencing and de novo assembly of 150 genomes from Denmark as a population reference

    Sørensen, L. M., Jensen, J. M., Petersen, Bent, Sibbesen, J. A., Liu, S., Villesen, P., Skov, L., Belling, Kirstine G, Have, C. T., Izarzugaza, J. M. G., Grosjean, M., Bork-Jensen, J., Grove, J., Als, T. D., Huang, S., Chang, Y., Xu, R., Ye, W., Rao, J., Guo, X., Sun, J., Cao, H., Ye, C., van Beusekom, J., Espeseth, T., Flindt, E., Friborg, R. M., Halager, A. E., Le Hellard, S., Hultman, C. M., Lescai, F., Li, S., Lund, O., Løngren, P., Mailund, T., Matey-Hernandez, M. L., Mors, O., Pedersen, C. N. S., Sicheritz-Pontén, T., Sullivan, P., Syed, A., Westergaard, David, Yadav, R., Li, N., Xu, X., Hansen, Torben, Krogh, Anders, Bolund, L., Sørensen, Thorkild I.A., Pedersen, Oluf Borbye, Gupta, R., Rasmussen, Simon, Besenbacher, S., Børglum, A. D., Wang, J., Eiberg, Hans Rudolf Lytchoff, Kristiansen, Karsten, Brunak, Søren & Schierup, M. H., 2017, In : Nature. 548, 7665, p. 87-91 5 p.

    Research output: Contribution to journalLetterResearchpeer-review

  224. Published

    Seqenv: linking sequences to environments through text mining

    Sinclair, L., Ijaz, U. Z., Jensen, Lars Juhl, Coolen, M. J. L., Gubry-Rangin, C., Chroňáková, A., Oulas, A., Pavloudi, C., Schnetzer, J., Weimann, A., Ijaz, A., Eiler, A., Quince, C. & Pafilis, E., 20 Dec 2016, In : PeerJ. 4, p. 1-17 17 p., e2690.

    Research output: Contribution to journalJournal articleResearchpeer-review

  225. Published

    Separation of the gluconeogenic and mitochondrial functions of pgc-1α through s6 kinase

    Lustig, Y., Ruas, J. L., Estall, J. L., Lo, J. C., Devarakonda, S., Laznik, D., Choi, J. H., Spiegelman, B. M., Ono, H. & Olsen, Jesper Velgaard, 15 Jun 2011, In : Genes & Development. 25, 12, p. 1232-1244 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  226. Published

    Semantic Relation Discovery by using Co-occurrence Information

    Schulz, S., Catalina, M. C., Kreuzthaler, M., Minarro-Gimenez, J. A., Andersen, U., Jensen, A. B. & Maegaard, Bente, 2014. 6 p.

    Research output: Contribution to conferencePaperResearchpeer-review

  227. Published

    Self-reported restless legs syndrome and involuntary leg movements during sleep are associated with symptoms of attention deficit hyperactivity disorder

    Didriksen, M., Thørner, L. W., Erikstrup, C., Pedersen, O. B., Paarup, H. M., Petersen, M., Hansen, T. F., Banasik, Karina, Nielsen, K. R., Hjalgrim, H., Jennum, Poul, Sørensen, E., Burgdorf, K. S. & Ullum, Henrik, 2019, In : Sleep Medicine. 57, p. 115-121 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  228. 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

  229. Published

    Self-assembly of designed coiled coil peptides studied by small-angle X-ray scattering and analytical ultracentrifugation

    Malik, L., Nygaard, J., Christensen, Niels Johan, Thulstrup, Peter Waaben, Arleth, Lise, Jensen, Knud Jørgen & Streicher, W., 2013, In : Journal of Peptide Science. 19, 5, p. 283-292 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  230. Published

    Selective use of corifollitropin for controlled ovarian stimulation for IVF in patients with low anti-Müllerian hormone

    Nielsen, Anna Pors, Korsholm, A., Lemmen, J. G., Lykke-Sylvest, Randi, Sopa, N. & Andersen, Anders Nyboe, 18 Feb 2016, In : Gynecological Endocrinology. 32, 8, p. 625–628 4 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  231. Published

    Selective autophagy maintains centrosome integrity and accurate mitosis by turnover of centriolar satellites

    Holdgaard, S. G., Cianfanelli, V., Pupo, E., Lambrughi, M., Lubas, M., Nielsen, J. C., Eibes, S., Maiani, E., Harder, L. M., Wesch, N., Foged, M. M., Maeda, K., Nazio, F., de la Ballina, L. R., Dötsch, V., Brech, A., Frankel, Lisa, Jäättelä, M., Locatelli, F., Barisic, Marin, Andersen, J. S., Bekker-Jensen, Simon Holst, Lund, Anders H., Rogov, V. V., Papaleo, Elena, Lanzetti, L., De Zio, D. & Cecconi, F., 2019, In : Nature Communications. 10, 1, p. 1-19 19 p., 4176.

    Research output: Contribution to journalJournal articleResearchpeer-review

  232. Published

    Secretome Analysis of Lipid-Induced Insulin Resistance in Skeletal Muscle Cells by a Combined Experimental and Bioinformatics Workflow

    Deshmukh, Atul Shahaji, Cox, J., Jensen, Lars Juhl, Meissner, F. & Mann, Matthias, 6 Nov 2015, In : Journal of Proteome Research. 14, 11, p. 4885-95 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  233. Published

    Search Databases and Statistics: Pitfalls and Best Practices in Phosphoproteomics

    Refsgaard, J. C., Munk, S. & Jensen, Lars Juhl, 2016, Phospho-Proteomics: Methods and Protocols. Stechow, L. V. (ed.). Springer Publishing Company, Vol. 1355. p. 323-39 17 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  234. Published

    Screening of genetic parameters for soluble protein expression in Escherichia coli

    Vernet, E., Kotzsch, A., Voldborg, B. & Sundström, M., 2011, In : Protein Expression and Purification. 77, 1, p. 104-11 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  235. Published

    Sacubitril/valsartan increases postprandial gastrin and cholecystokinin in plasma

    Andersen, U. O., Terzic, D., Albrechtsen, Nicolai Jacob Wewer, Mark, P. D., Plomgaard, Peter Stendahl, Rehfeld, Jens Frederik, Gustafssons, F. & Goetze, Jens P. , 2020, In : Endocrine Connections. 9, 5, p. 438-444

    Research output: Contribution to journalJournal articleResearchpeer-review

  236. Published

    Sacubitril/Valsartan Augments Postprandial Plasma Concentrations of Active GLP-1 When Combined With Sitagliptin in Men

    Albrechtsen, Nicolai Jacob Wewer, Mark, P. D., Terzic, D., Hansen, L. H., Andersen, U. Ø., Hartmann, Bolette, Carr, R. D., Gustafsson, Finn, Deacon, Carolyn F., Holst, Jens Juul, Goetze, Jens P. & Plomgaard, Peter Stendahl, 2019, In : Journal of Clinical Endocrinology and Metabolism. 104, 9, p. 3868-3876

    Research output: Contribution to journalJournal articleResearchpeer-review

  237. Published

    SVD-phy: improved prediction of protein functional associations through singular value decomposition of phylogenetic profiles

    Franceschini, A., Lin, J., von Mering, C. & Jensen, Lars Juhl, 2016, In : Bioinformatics. 32, 7, p. 1085-7 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  238. Published

    SUMOylation promotes protective responses to DNA-protein crosslinks

    Borgermann, N., Ackermann, Leena, Schwertman, P., Hendriks, Ivo Alexander, Thijssen, K., Liu, Julio, Lans, H., Nielsen, Michael Lund & Mailand, Niels, 2019, In : E M B O Journal. 38, 17 p., e101496.

    Research output: Contribution to journalJournal articleResearchpeer-review

  239. Published

    SUMOylation of the ING1b tumor suppressor regulates gene transcription

    Satpathy, S., Guérillon, C., Kim, T., Bigot, N., Thakur, S., Bonni, S., Riabowol, K. & Pedeux, R., Oct 2014, In : Carcinogenesis. 35, 10, p. 2214-23 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  240. Published

    SUMO-2 Orchestrates Chromatin Modifiers in Response to DNA Damage

    Hendriks, I. A., Treffers, L. W., Verlaan-de Vries, M., Olsen, Jesper Velgaard & Vertegaal, A. C. O., 17 Mar 2015, In : Cell Reports. 10, 10, p. 1778–1791

    Research output: Contribution to journalJournal articleResearchpeer-review

  241. Published

    SUMO and ubiquitin-dependent XPC exchange drives nucleotide excision repair

    Van Cuijk, L., Van Belle, G. J., Turkyilmaz, Y., Poulsen, S. L., Janssens, R. C., Theil, A. F., Sabatella, M., Lans, H., Mailand, Niels, Houtsmuller, A. B., Vermeulen, W. & Marteijn, J. A., 7 Jul 2015, In : Nature Communications. 6, 10 p., 7499.

    Research output: Contribution to journalJournal articleResearchpeer-review

  242. Published

    STRING v9.1: Protein-protein interaction networks, with increased coverage and integration

    Franceschini, A., Simonovic, M., Roth, A., Von Mering, C., Szklarczyk, D., Pletscher-Frankild, S., Jensen, Lars Juhl, Kuhn, M. M., Lin, J., Minguez, P. & Bork, P., 1 Jan 2013, In : Nucleic Acids Research. 41, D1, p. D808-D815 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  243. Published

    STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets

    Szklarczyk, D., Gable, A. L., Lyon, D., Junge, A., Wyder, S., Huerta-Cepas, J., Simonovic, M., Doncheva, Nadezhda Tsankova, Morris, J. H., Bork, P., Jensen, Lars Juhl & von Mering, C., 2019, In : Nucleic Acids Research. 47, D1, p. D607-D613 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  244. Published

    STRING v10: protein-protein interaction networks, integrated over the tree of life

    Szklarczyk, D., Franceschini, A., Wyder, S., Forslund, K., Heller, D., Huerta-Cepas, J., Simonovic, M., Roth, A., Santos Delgado, A., Tsafou, K. P., Kuhn, M., Bork, P., Jensen, Lars Juhl & von Mering, C., 28 Jan 2015, In : Nucleic Acids Research. 43, D1, p. D447-52 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  245. Published

    STRING 8--a global view on proteins and their functional interactions in 630 organisms

    Jensen, Lars Juhl, Kuhn, M., Stark, M., Chaffron, S., Creevey, C., Muller, J., Doerks, T., Julien, P., Roth, A., Simonovic, M., Bork, P. & von Mering, C., 2008, In : Nucleic Acids Research. 37, suppl 1, p. D412-D416 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  246. Published

    STK3 is a therapeutic target for a subset of acute myeloid leukemias

    Camgoz, A., Paszkowski-Rogacz, M., Satpathy, S., Wermke, M., Hamann, M. V., von Bonin, M., Choudhary, Chuna Ram, Knapp, S. & Buchholz, F., 2018, In : OncoTarget. 9, 39, p. 25458-25473 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  247. Published

    STITCH 5: augmenting protein-chemical interaction networks with tissue and affinity data

    Szklarczyk, D., Santos Delgado, A., von Mering, C., Jensen, Lars Juhl, Bork, P. & Kuhn, M., 2016, In : Nucleic Acids Research. 44, D1, p. D380-84 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  248. Published

    STITCH 4: integration of protein-chemical interactions with user data

    Kuhn, M., Szklarczyk, D. M., Pletscher-Frankild, S., Blicher, T. H., von Mering, C., Jensen, Lars Juhl & Bork, P., 28 Nov 2013, In : Nucleic Acids Research. 42, D1, p. D401-D407 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  249. Published

    STITCH 3: zooming in on protein-chemical interactions

    Kuhn, M., Szklarczyk, D., Franceschini, A., von Mering, C., Jensen, Lars Juhl & Bork, P., 2012, In : Nucleic Acids Research. 40, Database issue, p. D876-80

    Research output: Contribution to journalJournal articleResearchpeer-review

  250. Published

    STITCH 2: an interaction network database for small molecules and proteins

    Kuhn, M., Szklarczyk, D., Franceschini, A., Campillos, M., von Mering, C., Jensen, Lars Juhl, Beyer, A. & Bork, P., 2010, In : Nucleic Acids Research. 38, Database issue, p. D552-6

    Research output: Contribution to journalJournal articleResearchpeer-review

  251. Published

    SPOP promotes transcriptional expression of DNA repair and replication factors to prevent replication stress and genomic instability (vol 46, pg 9484, 2018)

    Hjorth-Jensen, K., Maya-Mendoza, A., Dalgaard, Nanna, Sigurosson, J. O., Bartek, J., Iglesias Gato, Diego, Olsen, Jesper Velgaard & Flores-Morales, A., 2018, In : Nucleic Acids Symposium Series. 46, 18, p. 9891-9891

    Research output: Contribution to journalJournal articleResearchpeer-review

  252. Published

    SPOP promotes transcriptional expression of DNA repair and replication factors to prevent replication stress and genomic instability

    Hjorth-Jensen, K., Maya-Mendoza, A., Dalgaard, Nanna, Sigurðsson, J. O., Bartek, J., Iglesias Gato, Diego, Olsen, Jesper Velgaard & Flores-Morales, A., 2018, In : Nucleic Acids Research. 46, 18, p. 9484-9495

    Research output: Contribution to journalJournal articleResearchpeer-review

  253. Published

    SPOC1 modulates DNA repair by regulating key determinants of chromatin compaction and DNA damage response

    Mund, Andreas, Schubert, T., Staege, H., Kinkley, S., Reumann, K., Kriegs, M., Fritsch, L., Battisti, V., Ait-Si-Ali, S., Hoffbeck, A., Soutoglou, E. & Will, H., Dec 2012, In : Nucleic Acids Research. 40, 22, p. 11363-79 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  254. Published

    SPATA2 links CYLD to the TNF-α receptor signaling complex and modulates the receptor signaling outcomes

    Wagner, S. A., Satpathy, S., Beli, P. & Choudhary, Chuna Ram, 1 Sep 2016, In : E M B O Journal. 35, 17, p. 1868-1884

    Research output: Contribution to journalJournal articleResearchpeer-review

  255. Published

    SOCS2 mediates the cross talk between androgen and growth hormone signaling in prostate cancer

    Iglesias Gato, Diego, Chuan, Y. C., Wikström, P., Augsten, S., Jiang, N., Niu, Y., Seipel, A., Danneman, D., Vermeij, M., Fernandez-Perez, L., Jenster, G., Egevad, L., Norstedt, G. & Flores Morales, A., 2014, In : Carcinogenesis. 35, 1, p. 24-33

    Research output: Contribution to journalJournal articleResearchpeer-review

  256. Published

    SOCS2 deletion protects against hepatic steatosis but worsens insulin resistance in high-fat-diet-fed mice

    Zadjali, F., Santana-Farre, R., Vesterlund, M., Carow, B., Mirecki-Garrido, M., Hernandez-Hernandez, I., Flodström-Tullberg, M., Parini, P., Rottenberg, M., Norstedt, G., Fernandez-Perez, L. & Flores Morales, A., 2012, In : FASEB journal : official publication of the Federation of American Societies for Experimental Biology. 26, 8, p. 3282-91 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  257. 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

  258. Published

    SOCS proteins in regulation of receptor tyrosine kinase signaling

    Kazi, J. U., Kabir, N. N., Flores Morales, A. & Rönnstrand, L., 2014, In : Cellular and Molecular Life Sciences. 71, 17, p. 3297-3310 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  259. Published

    SLX4: not SIMply a nuclease scaffold?

    Gibbs-Seymour, I. & Mailand, Niels, 8 Jan 2015, In : Molecular Cell. 57, 1, p. 3-5 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  260. Published

    SILAC-based quantitative mass spectrometry-based proteomics quantifies endoplasmic reticulum stress in whole HeLa cells

    Itzhak, D. N., Sacco, F., Nagaraj, N., Tyanova, S., Mann, Matthias & Murgia, M., 2019, In : Disease Models & Mechanisms. 12, 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  261. Published

    SILAC-Based Temporal Phosphoproteomics

    Francavilla, C., Hekmat, O., Blagoev, B. & Olsen, Jesper Velgaard, 2014, Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC): Methods and Protocols. Warscheid, B. (ed.). Vol. 1188. p. 125-48 24 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterEducation

  262. Published

    SHP1 regulates a STAT6-ITGB3 axis in FLT3ITD-positive AML cells

    Reich, D., Kresinsky, A., Müller, J. P., Bauer, R., Kallenbach, J., Schnoeder, T. M., Heidel, F. H., Fässler, R., Mann, Matthias, Böhmer, F. & Jayavelu, A. K., 2020, In : Leukemia. 34, p. 1444-1449

    Research output: Contribution to journalComment/debateResearch

  263. Published

    SDCCAG8 Interacts with RAB Effector Proteins RABEP2 and ERC1 and Is Required for Hedgehog Signaling

    Airik, R., Schueler, M., Airik, M., Cho, J., Ulanowicz, K. A., Porath, J. D., Hurd, T. W., Bekker-Jensen, Simon Holst, Schrøder, J. M., Andersen, J. S. & Hildebrandt, F., 2016, In : P L o S One. 11, 5, 19 p., e0156081.

    Research output: Contribution to journalJournal articleResearchpeer-review

  264. Published

    SCAI promotes DNA double-strand break repair in distinct chromosomal contexts

    Hansen, R. K., Mund, Andreas, Poulsen, S. L., Sandoval, M., Klement, K., Tsouroula, K., Tollenaere, M. A. X., Räschle, M., Soria, R., Offermanns, S., Worzfeld, T., Grosse, R., Brandt, D. T., Rozell, B., Mann, Matthias, Cole, F., Soutoglou, E., Goodarzi, A. A., Daniel, J. A., Mailand, Niels & Bekker-Jensen, Simon Holst, 7 Nov 2016, In : Nature Cell Biology. 18, 12, p. 1357–1366

    Research output: Contribution to journalLetterResearchpeer-review

  265. Published

    Roux-en-Y gastric bypass surgery of morbidly obese patients induces swift and persistent changes of the individual gut microbiota

    Palleja, A., Kashani, A., Allin, Kristine Højgaard, Nielsen, Trine, Zhang, C., Li, Y., Brach, Thorsten, Liang, S., Feng, Q., Jørgensen, N. B., Bojsen-Møller, K. N., Dirksen, C., Burgdorf, K. S., Holst, Jens Juul, Madsbad, Sten, Wang, J., Pedersen, Oluf Borbye, Hansen, Torben & Arumugam, Mani, 2016, In : Genome Medicine. 8, 13 p., 67.

    Research output: Contribution to journalJournal articleResearchpeer-review

  266. Published

    Role of the AMPKgamma3 isoform in hypoxia-stimulated glucose transport in glycolytic skeletal muscle

    Deshmukh, Atul Shahaji, Glund, S., Tom, R. Z. & Zierath, Juleen R, Dec 2009, In : American Journal of Physiology: Endocrinology and Metabolism. 297, 6, p. E1388-94

    Research output: Contribution to journalJournal articleResearchpeer-review

  267. Published

    Roadmap for a precision-medicine initiative in the Nordic region

    Njølstad, P. R., Andreassen, O. A., Brunak, Søren, Børglum, A. D., Dillner, J., Esko, T., Franks, P. W., Freimer, N., Groop, L., Heimer, H., Hougaard, D. M., Hovig, E., Hveem, K., Jalanko, A., Kaprio, J., Knudsen, G. P., Melbye, Mads, Metspalu, A., Mortensen, P. B., Palmgren, J., Palotie, A., Reed, W., Stefánsson, H., Stitziel, N. O., Sullivan, P. F., Thorsteinsdóttir, U., Vaudel, M., Vuorio, E., Werge, Thomas, Stoltenberg, C. & Stefánsson, K., 2019, In : Nature Genetics. 51, p. 924-930

    Research output: Contribution to journalComment/debateResearch

  268. Published

    Ring of Change: CDC48/p97 Drives Protein Dynamics at Chromatin

    Franz, A., Ackermann, Leena & Hoppe, T., 2016, In : Frontiers in Genetics. 7, p. 73

    Research output: Contribution to journalReviewResearchpeer-review

  269. Published

    Revisiting biomarker discovery by plasma proteomics

    Geyer, P. E., Holdt, L. M., Teupser, D. & Mann, Matthias, 26 Sep 2017, In : Molecular Systems Biology. 13, 9, 16 p., 942.

    Research output: Contribution to journalReviewResearchpeer-review

  270. Published

    Revision of the Classical Dopamine D2 Agonist Pharmacophore Based on an Integrated Medicinal Chemistry, Homology Modelling and Computational Docking Approach

    Krogsgaard-Larsen, N., Harpsøe, Kasper, Kehler, J., Christoffersen, C. T., Brøsen, P. & Balle, T., 24 Jul 2014, In : Neurochemical Research. 39, 10, p. 1997-2007 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  271. 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

  272. Published

    Retinoic Acid Signaling in Thymic Epithelial Cells Regulates Thymopoiesis

    Wendland, K., Niss, Kristoffer, Kotarsky, K., Wu, N. Y. H., White, A. J., Jendholm, L. J., Rivollier, A., Izarzugaza, J. M. G., Brunak, Søren, Holländer, G. A., Anderson, G., Sitnik, K. M. & Agace, W. W., 2018, In : Journal of Immunology. 201, 2, p. 524-532 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  273. Published

    Response to Raaijmakers & Medema

    Zhang, G., Kruse, Thomas, Boldú, C. G., Garvanska, Dimitriya Hristoforova, Coscia, Fabian, Mann, Matthias, Barisic, Marin & Nilsson, Jakob, 2019, In : The EMBO Journal. 38, 22, 5 p., e103547.

    Research output: Contribution to journalComment/debateResearch

  274. Published

    Resolution of the type material of the Asian elephant, Elephas maximus Linnaeus, 1758 (Proboscidea, Elephantidae)

    Cappellini, Enrico, Gentry, A., Palkopoulou, E., Ishida, Y., Cram, D., Roos, A., Watson, M., Johansson, U. S., Fernholm, B., Agnelli, P., Barbagli, F., Littlewood, D. T. J., Kelstrup, C., Olsen, Jesper Velgaard, Lister, A. M., Roca, A. L., Dalén, L. & Gilbert, M Thomas P, 2014, In : Zoological Journal of the Linnean Society. 170, 1, p. 222-232 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  275. Published

    Reply to 'Mining electronic health records: An additional perspective'

    Jensen, P. B., Jensen, Lars Juhl & Brunak, Søren, 1 Jan 2013, In : Nature Reviews. Genetics. 14, 1 p.

    Research output: Contribution to journalComment/debateResearchpeer-review

  276. Published

    Replication-Coupled DNA-Protein Crosslink Repair by SPRTN and the Proteasome in Xenopus Egg Extracts

    Larsen, Nicolai Balle, Gao, A. O., Sparks, J. L., Gallina, Irene, Wu, R. A., Mann, Matthias, Räschle, M., Walter, J. C. & Duxin, Julien, 2019, In : Molecular Cell. 73, 3, p. 574-588.e7 23 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  277. Published

    Replication fork stability confers chemoresistance in BRCA-deficient cells

    Chaudhuri, A. R., Callen, E., Ding, X., Gogola, E., Duarte, A. A., Lee, J., Wong, N., Lafarga, V., Calvo, J. A., Panzarino, N. J., John, S., Day, A., Crespo, A. V., Shen, B., Starnes, L. M., de Ruiter, J. R., Daniel, J. A., Konstantinopoulos, P. A., Cortez, D., Cantor, S. B., Fernandez-Capetillo, O., Ge, K., Jonkers, J., Rottenberg, S., Sharan, S. K. & Nussenzweig, A., 2016, In : Nature. 535, 7612, p. 382-7 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  278. Published

    Replication Catastrophe: When a Checkpoint Fails because of Exhaustion

    Toledo Lazaro, Luis Ignacio, Neelsen, K. J. & Lukas, Jiri, 15 Jun 2017, In : Molecular Cell. 66, 6, p. 735-749 15 p.

    Research output: Contribution to journalReviewResearchpeer-review

  279. Published

    Renew or die: The molecular mechanisms of peptidoglycan recycling and antibiotic resistance in Gram-negative pathogens

    Domínguez-Gil, T., Molina, Rafael, Alcorlo, M. & Hermoso, J. A., Sep 2016, In : Drug Resistance Updates. 28, p. 91-104 14 p.

    Research output: Contribution to journalReviewResearchpeer-review

  280. Published

    Renal-Retinal Ciliopathy Gene Sdccag8 Regulates DNA Damage Response Signaling

    Airik, R., Slaats, G. G., Guo, Z., Weiss, A., Khan, N., Ghosh, A., Hurd, T. W., Bekker-Jensen, Simon Holst, Schrøder, J. M., Elledge, S. J., Andersen, J. S., Kispert, A., Castelli, M., Boletta, A., Giles, R. H. & Hildebrandt, F., Nov 2014, In : Journal of the American Society of Nephrology:JASN. 25, 11, p. 2573-83 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  281. Published

    Regulation of the cancer-related Src kinase by S-nitrosylation

    Bignon, E. & Papaleo, Elena, 2019, In : Free Radical Biology and Medicine. 139, p. S13-S14

    Research output: Contribution to journalConference abstract in journalResearch

  282. Published

    Regulation of mitotic progression by the spindle assembly checkpoint

    Lischetti, T. & Nilsson, Jakob, 1 Jan 2015, In : Molecular & Cellular Oncology. 2, 1, p. e970484

    Research output: Contribution to journalJournal articleResearchpeer-review

  283. Published

    Regulation of eukaryotic elongation factor 1 alpha (eEF1A) by dynamic lysine methylation

    Jakobsson, M. E., Małecki, J. & Falnes, P. Ø., 2018, In : RNA biology. 15, 3, p. 314-319 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  284. Published

    Regulation of PCNA-protein interactions for genome stability

    Mailand, Niels, Gibbs-Seymour, I. & Bekker-Jensen, Simon Holst, May 2013, In : Nature Reviews. Molecular Cell Biology. 14, 5, p. 269-82 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  285. Published

    Regulation of GLI1 by cis DNA elements and epigenetic marks

    Taylor, R., Long, J., Yoon, J. W., Childs, R., Sylvestersen, K. B., Nielsen, Michael Lund, Leong, K., Iannaccone, S., Walterhouse, D. O., Robbins, D. J. & Iannaccone, P., 2019, In : DNA Repair. 79, p. 10-21 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  286. Published

    Regulation of ETAA1-mediated ATR activation couples DNA replication fidelity and genome stability

    Achuthankutty, D., Thakur, Roshan Singh, Haahr, Peter Thorlund, Hoffmann, Saskia, Drainas, A. P., Bizard, Anna Helene, Weischenfeldt, Joachim Lütken, Hickson, Ian David & Mailand, Niels, 2019, In : The Journal of Cell Biology. 218, 12, 11 p., 3943.

    Research output: Contribution to journalJournal articleResearchpeer-review

  287. Published

    Regulation of DNA double-strand break repair by ubiquitin and ubiquitin-like modifiers

    Schwertman, P., Bekker-Jensen, Simon Holst & Mailand, Niels, Jun 2016, In : Nature Reviews. Molecular Cell Biology. 17, 6, p. 379-94 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  288. Published

    RegulatING chromatin regulators: post-translational modification of the ING family of epigenetic regulators

    Satpathy, S., Nabbi, A. & Riabowol, K., 15 Mar 2013, In : Biochemical Journal. 450, 3, p. 433-42 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  289. Published

    Region and cell-type resolved quantitative proteomic map of the human heart

    Doll, S., Dreßen, M., Geyer, P. E., Itzhak, D. N., Braun, C., Doppler, S. A., Meier, F., Deutsch, M., Lahm, H., Lange, R., Krane, M. & Mann, Matthias, 13 Nov 2017, In : Nature Communications. 8, 1, 13 p., 1469.

    Research output: Contribution to journalJournal articleResearchpeer-review

  290. Published

    Reflect: augmented browsing for the life scientist

    Pafilis, E., O'Donoghue, S. I., Jensen, Lars Juhl, Horn, H., Kuhn, M., Brown, N. P. & Schneider, R., 2009, In : Nature Biotechnology. 27, 6, p. 508-10 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  291. Published

    Reflect: a practical approach to web semantics

    O'Donoghue, S. I., Horn, H., Pafilisa, E., Haag, S., Kuhn, M., Satagopam, V. P., Schneider, R. & Jensen, Lars Juhl, Jul 2010, In : Journal of Web Semantics. 8, 2-3, p. 182-189

    Research output: Contribution to journalJournal articleResearchpeer-review

  292. Published

    Reevaluation of genetic variants previously associated with arrhythmogenic right ventricular cardiomyopathy integrating population-based cohorts and proteomics data

    Ye, J. Z., Delmar, M., Lundby, Alicia & Olesen, Morten Steen Salling, 2019, In : Clinical Genetics. 96, 6, p. 506-514

    Research output: Contribution to journalJournal articleResearchpeer-review

  293. Published

    Reduced Hsp70 and Glutamine in Pediatric Severe Malaria Anemia: Role of Hemozoin in Suppressing Hsp70 and NF-κB activation

    Kempaiah, P., Dokladny, K., Karim, Z., Raballah, E., Ong'echa, J. M., Moseley, Pope Lloyd & Perkins, D. J., 2016, In : Molecular Medicine. 22, p. 570-584 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  294. Published

    Redox-sensitive alteration of replisome architecture safeguards genome integrity

    Somyajit, Kumar, Gupta, R., Sedlackova, Hana, Neelsen, K. J., Ochs, F., Rask, M., Choudhary, Chuna Ram & Lukas, Jiri, 10 Nov 2017, In : Science. 358, 6364, p. 797-802 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  295. Published

    Redox-active quinones induces genome-wide DNA methylation changes by an iron-mediated and Tet-dependent mechanism

    Zhao, B., Yang, Y., Wang, X., Chong, Z., Yin, R., Song, S., Zhao, C., Li, C., Huang, H., Sun, B., Wu, D., Jin, K., Song, M., Zhu, B., Jiang, G., Danielsen, J. M. R., Xu, G., Yang, Y. & Wang, H., Feb 2014, In : Nucleic Acids Research. 42, 3, p. 1593-1605 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  296. Published

    Recovery of gut microbiota of healthy adults following antibiotic exposure

    Palleja, A., Mikkelsen, K. H., Forslund, S. K., Kashani, A., Allin, Kristine Højgaard, Nielsen, Trine, Hansen, Tue Haldor, Liang, S., Feng, Q., Zhang, C., Pyl, P. T., Coelho, L. P., Yang, H., Wang, J., Typas, A., Nielsen, M. F., Nielsen, H. B., Bork, P., Wang, J., Vilsbøll, Tina, Hansen, Torben, Knop, Filip Krag, Arumugam, Mani & Pedersen, Oluf Borbye, Nov 2018, In : Nature Microbiology. 3, 11, p. 1255-1265 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  297. Published

    Recent findings and technological advances in phosphoproteomics for cells and tissues

    von Stechow, L., Francavilla, C. & Olsen, Jesper Velgaard, 2015, In : Expert Review of Proteomics. 12, 5, p. 469-87 19 p.

    Research output: Contribution to journalReviewResearchpeer-review

  298. Published

    Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse

    Orlando, L. A. A., Ginolhac, A., Zhang, G., Froese, D., Albrechtsen, Anders, Stiller, M., Schubert, M., Cappellini, Enrico, Petersen, Bent, Moltke, Ida, Johnson, P. L. F., Fumagalli, M., Mouatt, J. T. V., Raghavan, M., Korneliussen, Thorfinn Sand, Malaspinas, A. S., Vogt, J., Szklarczyk, D. M., Kelstrup, C., Vinther, J., Dolocan, A., Stenderup, J., Velazquez, A. M. V., Cahill, J., Rasmussen, M., Wang, X., Min, J., Zazula, G. D., Seguin-Orlando, A., Mortensen, C., Magnussen, K., Thompson, J. F., Weinstock, J., Gregersen, K., Røed, K. H., Eisenmann, V., Rubin, C. J., Miller, D. C., Antczak, D. F., Bertelsen, M. F., Brunak, S., Al-Rasheid, K. A. S., Ryder, O., Andersson, L., Mundy, J., Krogh, Anders, Gilbert, M Thomas P, Kjær, Kurt H., Sicheritz-Pontén, T., Jensen, Lars Juhl, Olsen, Jesper Velgaard, Hofreiter, M., Nielsen, R., Shapiro, B., Wang, J. & Willerslev, Eske, 4 Jul 2013, In : Nature. 499, 7456, p. 74-78 5 p.

    Research output: Contribution to journalLetterResearchpeer-review

  299. Published

    Rare truncating variants in the sarcomeric protein titin associate with familial and early-onset atrial fibrillation

    Ahlberg, G., Refsgaard, L., Lundegaard, Pia Rengtved, Andreasen, L., Ranthe, M. F., Linscheid, N., Nielsen, J. B., Melbye, Mads, Haunsø, Stig, Sajadieh, Ahmad, Camp, L., Olesen, Søren-Peter, Rasmussen, Simon, Lundby, Alicia, Ellinor, P. T., Holst, A. G., Svendsen, Jesper Hastrup & Olesen, Morten Steen Salling, 2018, In : Nature Communications. 9, 1, 11 p., 4316.

    Research output: Contribution to journalJournal articleResearchpeer-review

  300. Published

    Rapid proteomic analysis for solid tumors reveals LSD1 as a drug target in an end-stage cancer patient

    Doll, S., Kriegmair, M. C., Santos, A., Wierer, M., Coscia, Fabian, Neil, Helen, Porubsky, S., Geyer, P. E., Mund, Andreas, Nuhn, P. & Mann, Matthias, 2018, In : Molecular Oncology. 12, 8, p. 1296-1307 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  301. Published

    Rapid and transient protein acetylation changes in response to DNA damage

    Jungmichel, S. & Blasius, M., 1 Jun 2013, In : Cell Cycle. 12, 13, p. 1993-1994 2 p.

    Research output: Contribution to journalJournal articleCommunication

  302. Published

    Rapid and site-specific deep phosphoproteome profiling by data-independent acquisition without the need for spectral libraries

    Bekker-Jensen, D. B., Bernhardt, O. M., Hogrebe, A., Martinez-Val, A., Verbeke, L., Gandhi, T., Kelstrup, C. D., Reiter, L. & Olsen, Jesper Velgaard, 2020, In : Nature Communications. 11, 1

    Research output: Contribution to journalJournal articleResearchpeer-review

  303. Published

    Rapid and Deep Proteomes by Faster Sequencing on a Benchtop Quadrupole Ultra-High-Field Orbitrap Mass Spectrometer

    Kelstrup, C. D., Jersie-Christensen, R. R., Batth, Tanveer Singh, Arrey, T. N., Kuehn, A., Kellmann, M. & Olsen, Jesper Velgaard, 28 Oct 2014, In : Journal of Proteome Research. 13, 12, p. 6187-95 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  304. Published

    Ranking factors involved in diabetes remission after bariatric surgery using machine-learning integrating clinical and genomic biomarkers

    Pedersen, Helle Krogh, Gudmundsdottir, V., Pedersen, M. K., Brorsson, C., Brunak, Søren & Gupta, R., 2016, In : npj Genomic Medicine. 1, 16035.

    Research output: Contribution to journalJournal articleResearchpeer-review

  305. Published

    RNF8 and RNF168 but not HERC2 are required for DNA damage-induced ubiquitylation in chicken DT40 cells

    Østergaard, Vibe Hallundbæk, Pentzold, C., Pedersen, R. T., Iosif, S., Alpi, A., Bekker-Jensen, Simon Holst, Mailand, Niels & Lisby, Michael, 2012, In : D N A Repair. 11, 11, p. 892–905 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  306. Published

    RNF4 is required for DNA double-strand break repair in vivo

    Vyas, R., Kumar, R., Clermont, F., Helfricht, A., Kalev, P., Sotiropoulou, P., Hendriks, I. A., Radaelli, E., Hochepied, T., Blanpain, C., Sablina, A., van Attikum, H., Olsen, Jesper Velgaard, Jochemsen, A. G., Vertegaal, A. C. O. & Marine, J., Mar 2013, In : Cell Death and Differentiation. 20, 3, p. 490-502 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  307. Published

    RNF138 joins the HR team

    Bekker-Jensen, Simon Holst & Mailand, Niels, Oct 2015, In : Nature Cell Biology. 17, 11, p. 1375-7 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  308. Published

    RNF111/Arkadia is a SUMO-targeted ubiquitin ligase that facilitates the DNA damage response

    Poulsen, S. L., Hansen, R. K., Wagner, S. A., van Cuijk, L., van Belle, G. J., Streicher, W., Wikström, M., Choudhary, Chuna Ram, Houtsmuller, A. B., Marteijn, J. A., Bekker-Jensen, Simon Holst & Mailand, Niels, 10 Jun 2013, In : Journal of Cell Biology. 201, 6, p. 797-807 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  309. Published

    RNAscClust: Clustering RNA sequences using structure conservation and graph based motifs

    Miladi, M., Junge, A., Costa, F., Seemann, Ernst Stefan, Havgaard, Jakob Hull, Gorodkin, Jan & Backofen, R., 2017, In : Bioinformatics. 33, 14, p. 2089-2096 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  310. Published

    RNA-DNA sequence differences spell genetic code ambiguities

    Bentin, Thomas & Nielsen, Michael Lund, 2013, In : Artificial DNA. 2, 3, p. 69-70 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  311. Published

    REST mediates androgen receptor actions on gene repression and predicts early recurrence of prostate cancer

    Svensson, C., Ceder, J., Iglesias Gato, Diego, Chuan, Y. C., Pang, S. T., Bjartell, A., Martinez, R. M., Bott, L., Helczynski, L., Ulmert, D., Wang, Y., Niu, Y., Collins, C. & Flores Morales, A., 2014, In : Nucleic Acids Research. 42, 2, p. 999-1015 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  312. Published

    RAIN: RNA-protein Association and Interaction Networks

    Junge, A., Refsgaard, J. C., Garde, C., Pan, X., Santos, A., Alkan, F., Anthon, Christian, von Mering, C., Workman, C. T., Jensen, Lars Juhl & Gorodkin, Jan, 2017, In : Database. 2017, 9 p., baw167.

    Research output: Contribution to journalJournal articleResearchpeer-review

  313. Published

    RADX interacts with single-stranded DNA to promote replication fork stability

    Schubert, Lisa, Ho, T., Hoffmann, Saskia, Haahr, Peter Thorlund, Guérillon, C. & Mailand, Niels, Nov 2017, In : EMBO Reports. 18, 11, p. 1991-2003 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  314. Published

    Quick and clean: Cracking sentences encoded in E. coli by LC-MS/MS, de novo sequencing, and dictionary search

    Niu, Lili & Mann, Matthias, 2019, In : EuPA Open Proteomics. 22-23, p. 30-35 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  315. Published

    Quantitative, high-resolution proteomics for data-driven systems biology

    Cox, J. & Mann, Matthias, 7 Jul 2011, In : Annual Review of Biochemistry. 80, p. 273-299 27 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  316. Published

    Quantitative proteomics characterization of acutely isolated primary adult rat cardiomyocytes and fibroblasts

    Poulsen, P. C., Schrölkamp, Maren, Bagwan, Navratan, Leurs, U., Humphries, E. S. A., Bomholzt, S. H., Nielsen, Morten Schak, Bentzen, Bo Hjorth, Olsen, Jesper Velgaard & Lundby, Alicia, Jun 2020, In : Journal of Molecular and Cellular Cardiology. 143, p. 63-70 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  317. Published

    Quantitative proteomics and single-nucleus transcriptomics of the sinus node elucidates the foundation of cardiac pacemaking

    Linscheid, N., Logantha, S. J. R. J., Poulsen, C., Zhang, S., Schrölkamp, Maren, Egerod, Kristoffer Lihme, Thompson, J. J., Kitmitto, A., Galli, G., Humphries, M. J., Zhang, H., Pers, Tune H, Olsen, Jesper Velgaard, Boyett, M. & Lundby, Alicia, 2019, In : Nature Communications. 10, 19 p., 2889.

    Research output: Contribution to journalJournal articleResearchpeer-review

  318. Published

    Quantitative phosphoproteomics to unravel the cellular response to chemical stressors with different modes of action

    Sampadi, B., Pines, A., Munk, S., Mišovic, B., de Groot, A. J., van de Water, B., Olsen, Jesper Velgaard, Mullenders, L. H. F. & Vrieling, H., 2020, In : Archives of Toxicology. 94, p. 1655-1671 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  319. Published

    Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis

    Olsen, Jesper Velgaard, Vermeulen, M., Santamaria, A., Kumar, C., Miller, M. L., Jensen, Lars Juhl, Gnad, F., Cox, J., Jensen, T. S., Nigg, E. A., Brunak, Søren & Mann, Matthias, 2010, In : Science Signaling. 3, 104, p. ra3 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  320. Published

    Quantitative phosphoproteomics dissection of 7TM receptor signaling using full and biased agonists

    Christensen, G. L., Kelstrup, C., Lyngsø, C., Sarwar, U., Bøgebo, R., Sheikh, S. P., Gammeltoft, S., Olsen, Jesper Velgaard & Hansen, J. L., Jul 2010, In : Molecular and Cellular Proteomics. 9, 7, p. 1540-53 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  321. Published

    Quantitative metaproteomics of medieval dental calculus reveals individual oral health status

    Jersie-Christensen, R. R., Lanigan, Liam Thomas, Lyon, D., Mackie, Meaghan, Belstrøm, Daniel, Kelstrup, C. D., Fotaki, Anna Katerina, Willerslev, Eske, Lynnerup, Niels, Jensen, Lars Juhl, Cappellini, Enrico & Olsen, Jesper Velgaard, 2018, In : Nature Communications. 9, p. 1-12 4744.

    Research output: Contribution to journalJournal articleResearchpeer-review

  322. 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

  323. Published

    Quantitative interaction proteomics and genome-wide profiling of epigenetic histone marks and their readers

    Vermeulen, M., Eberl, H. C., Matarese, F., Marks, H., Denissov, S., Butter, F., Lee, K. K., Olsen, Jesper Velgaard, Hyman, A. A., Stunnenberg, H. G. & Mann, M., 17 Sep 2010, In : Cell. 142, 6, p. 967-80 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  324. Published

    Quantitative and Dynamic Catalogs of Proteins Released during Apoptotic and Necroptotic Cell Death

    Tanzer, M. C., Frauenstein, A., Stafford, C. A., Phulphagar, K., Mann, Matthias & Meissner, F., 28 Jan 2020, In : Cell Reports. 30, 4, p. 1260-1270.e5

    Research output: Contribution to journalJournal articleResearchpeer-review

  325. Published

    Quantitative Proteomic Analysis Reveals Synaptic Dysfunction in the Amygdala of Rats Susceptible to Chronic Mild Stress

    Zhou, M., Liu, Z., Yu, J., Li, S., Tang, M., Zeng, L., Wang, H., Xie, H., Peng, L., Huang, H., Zhou, C., Xie, P. & Zhou, J., 2018, In : Neuroscience. 376, p. 24-39 16 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  326. Published

    Quantitative Protein Profiling of Chlamydia trachomatis Growth Forms Reveals Defense Strategies Against Tryptophan Starvation

    Østergaard, Ole, Follmann, F., Olsen, A. W., Heegaard, N. H., Andersen, P. & Rosenkrands, I., Dec 2016, In : Molecular and Cellular Proteomics. 15, 12, p. 3540-3550 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  327. Published

    Quantitation of Poly(ADP-Ribose) by Isotope Dilution Mass Spectrometry

    Zubel, T., Martello, R., Bürkle, A. & Mangerich, A., 2017, Poly(ADP-Ribose) Polymerase . Tulin, A. V. (ed.). Humana Press, Vol. 1608. p. 3-18 16 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  328. Published

    Quantifying environmental adaptation of metabolic pathways in metagenomics

    Gianoulis, T. A., Raes, J., Patel, P. V., Bjornson, R., Korbel, J. O., Letunic, I., Yamada, T., Paccanaro, A., Snyder, M., Bork, P., Gerstein, M. B. & Jensen, Lars Juhl, 2009, In : Proceedings of the National Academy of Science of the United States of America. 106, 5, p. 1374-9 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  329. Published

    Quantification of the N-glycosylated secretome by super-SILAC during breast cancer progression and in human blood Samples

    Boersema, P. J., Geiger, T., Wiśniewski, J. R. & Mann, Matthias, 1 Jan 2013, In : Molecular & Cellular Proteomics. 12, 1, p. 158-171 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  330. Published

    Quality control for plasma and cerebrospinal fluid samples using mass spectrometry

    Skotte, N. H., Geyer, P. E., Steger, M., Treit, P. V., Voytik, E., Hellem, M. N., Nielsen, Jørgen Erik & Mann, Matthias, 2018, In : Journal of Neurology, Neurosurgery and Psychiatry. 89, p. A31-A32

    Research output: Contribution to journalConference abstract in journalResearch

  331. Published

    Purification, characterization and crystallization of the human 80S ribosome

    Khatter, H., Myasnikov, A. G., Mastio, L., Billas, I. M. L., Birck, C., Stella, Stefano & Klaholz, B. P., 1 Jan 2014, In : Nucleic Acids Research. 42, 6

    Research output: Contribution to journalJournal articleResearchpeer-review

  332. Published

    Publisher Correction: Protein-altering variants associated with body mass index implicate pathways that control energy intake and expenditure in obesity

    Turcot, V., Lu, Y., Highland, H. M., Schurmann, C., Justice, A. E., Fine, R. S., Bradfield, J. P., Esko, T., Giri, A., Graff, M., Guo, X., Hendricks, A. E., Karaderi, T., Lempradl, A., Locke, A. E., Mahajan, A., Marouli, E., Sivapalaratnam, S., Young, K. L., Alfred, T., Feitosa, M. F., Masca, N. G. D., Manning, A. K., Winkler, T. W., Bang, L. E., Benn, Marianne, Bork-Jensen, J., Frikke-Schmidt, Ruth, Grarup, Niels, Hansen, Torben, Have, C. T., Jensen, G. B., Jørgensen, M. E., Jørgensen, T., Kamstrup, P. R., Karpe, F., Kovacs, P., Li, J., Lind, L., Linneberg, Allan René, Nielsen, S. F., Nordestgaard, Børge, Pedersen, Oluf Borbye, Pers, Tune H, Tybjærg-Hansen, Anne, V Varga, Tibor, drb459, drb459, Witte, D. R., Zhao, J. H., Loos, R. J. F. & CHD Exome+ Consortium, C. E. C., Jul 2019, In : Nature Genetics. 51, 7, p. 1191-1192 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  333. Published

    Præcisionskardiologi

    Haue, Amalie Dahl, Vissing, C. R., Tfelt-Hansen, Jacob, Brunak, Søren, Bundgård, Henning & Weeke, P. E., 1 Oct 2018, In : Ugeskrift for Laeger. 180, 20A, p. 1851-54

    Research output: Contribution to journalJournal articleResearchpeer-review

  334. Published

    Proteomics-Based Comparative Mapping of the Secretomes of Human Brown and White Adipocytes Reveals EPDR1 as a Novel Batokine

    Deshmukh, Atul Shahaji, Peijs, Lone, Beaudry, J. L., Jespersen, N. Z., Nielsen, Carsten Haagen, Ma, T., Brunner, A. D., Larsen, T. J., Bayarri-Olmos, R., Prabhakar, B. S., Helgstrand, C., Severinsen, M. C. K., Holst, Birgitte, Kjær, Andreas, Tang-Christensen, M., Sanfridson, A., Garred, Peter, Privé, G. G., Pedersen, Bente Klarlund, Gerhart-Hines, Z., Nielsen, S., Drucker, D. J., Mann, Matthias & Schéele, Camilla Charlotte, 2019, In : Cell Metabolism. 30, 5, p. 963-975.e7 21 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  335. Published

    Proteomics reveals the effects of sustained weight loss on the human plasma proteome

    Geyer, P. E., Albrechtsen, Nicolai Jacob Wewer, Tyanova, S., Grassl, N., Lehmann, Eva Winning, Lundgren, J., Madsbad, Sten, Holst, Jens Juul, Torekov, Signe Sørensen & Mann, Matthias, 22 Dec 2016, In : Molecular Systems Biology. 12, 16 p., 901.

    Research output: Contribution to journalJournal articleResearchpeer-review

  336. Published

    Proteomics reveals dynamic assembly of repair complexes during bypass of DNA cross-links

    Räschle, M., Smeenk, G., Hansen, R. K., Temu, T., Oka, Y., Hein, M. Y., Nagaraj, N., Long, D. T., Walter, J. C., Hofmann, K., Storchova, Z., Cox, J., Bekker-Jensen, Simon Holst, Mailand, Niels & Mann, Matthias, 2015, In : Science. 348, 6234, p. 539- 10 p., 1253671.

    Research output: Contribution to journalJournal articleResearchpeer-review

  337. Published

    Proteomics reveals NNMT as a master metabolic regulator of cancer-associated fibroblasts

    Eckert, M. A., Coscia, Fabian, Chryplewicz, A., Chang, J. W., Hernandez, K. M., Pan, S., Tienda, S. M., Nahotko, D. A., Li, G., Blaženović, I., Lastra, R. R., Curtis, M., Yamada, S. D., Perets, R., McGregor, S. M., Andrade, J., Fiehn, O., Moellering, R. E., Mann, Matthias & Lengyel, E., 2019, In : Nature. 569, 7758, p. 723-728

    Research output: Contribution to journalLetterResearchpeer-review

  338. Published

    Proteomics of Skeletal Muscle: Focus on Insulin Resistance and Exercise Biology

    Deshmukh, A., 2016, In : Proteomes. 4, 1, 19 p., 6.

    Research output: Contribution to journalReviewResearchpeer-review

  339. Published

    Proteomics of Cytochrome c Oxidase-Negative versus -Positive Muscle Fiber Sections in Mitochondrial Myopathy

    Murgia, M., Tan, J., Geyer, P. E., Doll, S., Mann, Matthias & Klopstock, T., 2019, In : Cell Reports. 29, 12, p. 3825-3834 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  340. Published

    Proteomics insights into DNA damage response and translating this knowledge to clinical strategies

    von Stechow, L. & Olsen, Jesper Velgaard, Feb 2017, In : Proteomics. 17, 3-4, 15 p., 1600018.

    Research output: Contribution to journalReviewResearchpeer-review

  341. Published

    Proteomics in the Study of Liver Diseases

    Niu, Lili, Geyer, P. E. & Mann, Matthias, 2018, The Human Gut-Liver-Axis in Health and Disease. Krag, A. & Hansen, T. (eds.). Springer, p. 165-193

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  342. Published

    Proteomics for blood biomarker exploration of severe mental illness: pitfalls of the past and potential for the future

    Comes, A. L., Papiol, S., Mueller, T., Geyer, P. E., Mann, Matthias & Schulze, T. G., 2018, In : Translational Psychiatry. 8, p. 1-15 15 p., 160.

    Research output: Contribution to journalReviewResearchpeer-review

  343. 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

  344. Published

    Proteomics Reveals Global Regulation of Protein SUMOylation by ATM and ATR Kinases during Replication Stress

    Munk, S., Sigurðsson, J. O., Xiao, Z., Batth, Tanveer Singh, Franciosa, Giulia, von Stechow, L., Lopez-Contreras, Andres, Vertegaal, A. C. O. & Olsen, Jesper Velgaard, 2017, In : Cell Reports. 21, 2, p. 546-558 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  345. Published

    Proteomics Analysis of Skeletal Muscle from Leptin-Deficient ob/ob Mice Reveals Adaptive Remodeling of Metabolic Characteristics and Fiber Type Composition

    Schönke, M., Björnholm, M., Chibalin, A. V., Zierath, Juleen R & Deshmukh, Atul Shahaji, 2018, In : Proteomics. 18, 5-6, p. 1-11 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  346. Published

    Proteomic profiling of archaeological human bone

    Sawafuji, R., Cappellini, Enrico, Nagaoka, T., Fotaki, Anna Katerina, Jersie-Christensen, R. R., Olsen, Jesper Velgaard, Hirata, K. & Ueda, S., Jun 2017, In : Royal Society Open Science. 4, 6, 12 p., 161004.

    Research output: Contribution to journalJournal articleResearchpeer-review

  347. Published

    Proteomic investigations reveal a role for RNA processing factor THRAP3 in the DNA damage response

    Beli, P., Lukashchuk, N., Wagner, S. A., Weinert, B. T., Olsen, Jesper Velgaard, Baskcomb, L., Mann, Matthias, Jackson, S. P. & Choudhary, Chuna Ram, 2012, In : Molecular Cell. 46, 2, p. 212-25 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  348. Published

    Proteomic investigations of lysine acetylation identify diverse substrates of mitochondrial deacetylase sirt3

    Sol, E. M., Wagner, S. A., Weinert, B. T., Kumar, A., Kim, H., Deng, C. & Choudhary, Chuna Ram, 7 Dec 2012, In : PloS one. 7, 12, p. e50545

    Research output: Contribution to journalJournal articleResearchpeer-review

  349. Published

    Proteomic evidence of dietary sources in ancient dental calculus

    Hendy, J., Warinner, C., Bouwman, A., Collins, Matthew James, Fiddyment, S., Fischer, R., Hagan, R., Hofman, C. A., Holst, M., Chaves, E., Klaus, L., Larson, G., Mackie, Meaghan, McGrath, K., Mundorff, A. Z., Radini, A., Rao, H., Trachsel, C., Velsko, I. M. & Speller, C. F., 2018, In : Proceedings of the Royal Society B: Biological Sciences. 285, 1883, 977.

    Research output: Contribution to journalJournal articleResearchpeer-review

  350. Published

    Proteomic characterization of chromosomal common fragile site (CFS)-associated proteins uncovers ATRX as a regulator of CFS stability

    Pladevall Morera, David, Munk, S., Ingham, Andreas, Garribba, L., Albers, E., Liu, Ying, Olsen, Jesper Velgaard & Lopez-Contreras, Andres, 2019, In : Nucleic Acids Research. 47, 15, p. 8004-8018 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  351. 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

  352. Published

    Proteomic analysis of arginine methylation sites in human cells reveals dynamic regulation during transcriptional arrest

    Sylvestersen, K. B., Horn, H., Jungmichel, S., Jensen, Lars Juhl & Nielsen, Michael Lund, 21 Feb 2014, In : Molecular & Cellular Proteomics. 13, p. 2072-2088 17 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  353. Published

    Proteomic analysis of a pleistocene mammoth femur reveals more than one hundred ancient bone proteins

    Cappellini, Enrico, Jensen, Lars Juhl, Szklarczyk, D. M., Ginolhac, A., Rodrigues da Fonseca, Rute Andreia, Stafford jr., T., Holen, S. R., Collins, M. J., Orlando, L. A. A., Willerslev, Eske, Gilbert, M Thomas P & Olsen, Jesper Velgaard, 2012, In : Journal of Proteome Research. 11, 2, p. 917-926 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  354. Published

    Proteomic analyses reveal divergent ubiquitylation site patterns in murinetissues

    Wagner, S. A., Beli, P., Weinert, B. T., Schölz, C. F., Kelstrup, C. D., Young, C., Nielsen, Michael Lund, Olsen, Jesper Velgaard, Brakebusch, Cord Herbert & Choudhary, Chuna Ram, 2012, In : Molecular & Cellular Proteomics.

    Research output: Contribution to journalJournal articleResearchpeer-review

  355. Published

    Proteome-wide mapping of the Drosophila acetylome demonstrates a high degree of conservation of lysine acetylation

    Weinert, B. T., Wagner, S. A., Horn, H., Henriksen, P., Liu, W. R., Olsen, Jesper Velgaard, Jensen, Lars Juhl & Choudhary, Chuna Ram, 2011, In : Science Signaling. 4, 183, p. ra48

    Research output: Contribution to journalJournal articleResearchpeer-review

  356. Published

    Proteome-wide identification of the endogenous ADP-ribosylome of mammalian cells and tissue

    Martello, R., Leutert, M., Jungmichel, S., Bilan, V., Buch-Larsen, Sara Charlotte, Young, C., Hottiger, M. O. & Nielsen, Michael Lund, 1 Oct 2016, In : Nature Communications. 7, 13 p., 12917.

    Research output: Contribution to journalJournal articleResearchpeer-review

  357. 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, Chuna Ram, 2012, In : Molecular & Cellular Proteomics. 11, 11, p. 1510-1522 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  358. Published

    Proteome-wide analysis of arginine monomethylation reveals widespread occurrence in human cells

    Buch-Larsen, Sara Charlotte, Sylvestersen, K. B., Mund, Andreas, Lyon, D., Mullari, Meeli, Vistrup-Parry, Maria, Daniel, J. A., Jensen, Lars Juhl & Nielsen, Michael Lund, 30 Aug 2016, In : Science signaling. 9, 443, 14 p., rs9.

    Research output: Contribution to journalJournal articleResearchpeer-review

  359. Published

    Proteome-wide analysis of SUMO2 targets in response to pathological DNA replication stress in human cells

    Bursomanno, S., Beli, P., Khan, A. M., Minocherhomji, S., Wagner, S. A., Bekker-Jensen, Simon Holst, Mailand, Niels, Choudhary, Chuna Ram, Hickson, Ian David & Liu, Ying, Jan 2015, In : DNA Repair. 25, p. 84-96 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  360. Published

    Proteome-wide Identification of Poly(ADP-Ribosyl)ation Targets in Different Genotoxic Stress Responses

    Jungmichel, S., Rosenthal, F., Altmeyer, M., Lukas, Jiri, Hottiger, M. O. & Nielsen, Michael Lund, 24 Oct 2013, In : Molecular Cell. 52, 2, p. 272-285 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  361. Published

    Proteome-Wide Identification of In Vivo ADP-Ribose Acceptor Sites by Liquid Chromatography-Tandem Mass Spectrometry

    Buch-Larsen, Sara Charlotte, Leutert, M., Bilan, V., Martello, R., Jungmichel, S., Young, C., Hottiger, M. O. & Nielsen, Michael Lund, 2017, Poly(ADP-Ribose) Polymerase. Tulin, A. V. (ed.). Humana Press, Vol. 1608. p. 149-162 14 p. (Methods in molecular biology (Clifton, N.J.)).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  362. Published

    Proteome and Phosphoproteome Changes Associated with Prognosis in Acute Myeloid Leukemia

    Aasebø, E., Berven, F. S., Bartaula-Brevik, S., Stokowy, T., Hovland, R., Vaudel, M., Døskeland, S. O., McCormack, E., Batth, Tanveer Singh, Olsen, Jesper Velgaard, Bruserud, Ø., Selheim, F. & Hernandez-Valladares, M., 2020, In : Cancers. 12, 3, 26 p., 709.

    Research output: Contribution to journalJournal articleResearchpeer-review

  363. Published

    Proteogenomic characterization of patient-derived xenografts highlights the role of REST in neuroendocrine differentiation of castration-resistant prostate cancer

    Flores-Morales, A., Bergmann, Tobias Borgtoft, Lavallee, C., Batth, Tanveer Singh, Lin, D., Lerdrup, Mads, Friis, S., Bartels, A., Kristensen, G., Krzyzanowska, A., Xue, H., Fazli, L., Hansen, Klaus, Røder, Martin Andreas, Brasso, Klaus, Moreira, José, Bjartell, A., Wang, Y., Olsen, Jesper Velgaard, Collins, C. C. & Iglesias Gato, Diego, 2019, In : Clinical Cancer Research. 25, 2, p. 1-15

    Research output: Contribution to journalJournal articleResearchpeer-review

  364. Published

    Protein-protein interactions: analysis and prediction

    Frishman, D., Albert, M., Blankenburg, H., Bork, P., Harrington, E. D., Hermjakob, H., Jensen, Lars Juhl, Juan, D. A., Pagel, P., Schachter, V. & Valencia, A., 2009, Modern Genome Annotation: The BioSapien Network. Springer Publishing Company, p. 353-410 (Modern Genome Annotation: The BioSapiens network).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearch

  365. Published

    Protein-driven inference of miRNA-disease associations

    Mørk, S., Pletscher-Frankild, S., Palleja, A., Gorodkin, Jan & Jensen, Lars Juhl, 2014, In : Bioinformatics (Oxford, England). 30, 3, p. 392-397 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  366. Published

    Protein-Protein Interaction Databases

    Szklarczyk, D. & Jensen, Lars Juhl, 2015, Protein-Protein Interactions: Methods and Applications. Meyerkord, C. L. & Fu, H. (eds.). 2 ed. New York: Springer Publishing Company, Vol. 1278. p. 39-56 18 p. (Methods in Molecular Biology, Vol. 1278).

    Research output: Chapter in Book/Report/Conference proceedingBook chapterResearchpeer-review

  367. Published

    Protein sequences bound to mineral surfaces persist into deep time

    Demarchi, B., Hall, S., Roncal-Herrero, T., Freeman, C. L., Woolley, J., Crisp, M. K., Wilson, J., Fotaki, Anna Katerina, Fischer, R., Kessler, B. M., Jersie-Christensen, R. R., Olsen, Jesper Velgaard, Haile, J., Thomas, J., Marean, C. W., Parkington, J., Presslee, S., Lee-Thorp, J., Ditchfield, P., Hamilton, J. F., Ward, M. W., Wang, C. M., Shaw, M. D., Harrison, T., Domínguez-Rodrigo, M., MacPhee, R. D. E., Kwekason, A., Ecker, M., Kolska Horwitz, L., Chazan, M., Kröger, R., Thomas-Oates, J., Harding, J. H., Cappellini, Enrico, Penkman, K. & Collins, Matthew James, 2016, In : eLife. 5, 50 p., e17092.

    Research output: Contribution to journalJournal articleResearchpeer-review

  368. Published

    Protein phosphatases in the regulation of mitosis

    Nilsson, Jakob, 2019, In : The Journal of Cell Biology. 218, 2, 15 p., 395.

    Research output: Contribution to journalReviewResearchpeer-review

  369. Published

    Protein kinase A stimulates Kv7.1 surface expression by regulating Nedd4-2-dependent endocytic trafficking

    Andersen, M. N., Hefting, L. L., Steffensen, Annette Buur, Schmitt, Nicole, Olesen, Søren-Peter, Olsen, Jesper Velgaard, Lundby, Alicia & Rasmussen, Hanne Borger, 15 Nov 2015, In : American Journal of Physiology: Cell Physiology. 309, 10, p. C693-C706 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  370. Published

    Protein interaction-based genome-wide analysis of incident coronary heart disease

    Jensen, Majken Karoline, Pers, Tune H, Dworzynski, P., Girman, C. J., Brunak, Søren & Rimm, E. B., 2011, In : Circulation: Cardiovascular Genetics. 4, 5, p. 549-56 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  371. Published

    Protein features as determinants of wild-type glycoside hydrolase thermostability

    Geertz-Hansen, H. M., Kiemer, L., Nielsen, M., Stanchev, K., Blom, N., Brunak, Søren & Petersen, T. N., Nov 2017, In : Proteins: Structure, Function, and Bioinformatics. 85, 11, p. 2036-2044 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  372. 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

  373. Published

    Protein annotation in the era of personal genomics

    Blicher, T., Gupta, R., Wesolowska, A.,