The NNF Center for Protein Research

  1. 2020
  2. E-pub ahead of print

    Mendelian randomization analysis does not support causal associations of birth weight with hypertension risk and blood pressure in adulthood

    Zheng, Y., Huang, T., Wang, T., Mei, Z., Sun, Z., Zhang, T., Ellervik, Christina, Chai, J., Sim, X., van Dam, R. M., Tai, E., Koh, W., Dorajoo, R., Saw, S., Sabanayagam, C., Wong, T. Y., Gupta, P., Rossing, Peter, Ahluwalia, T. S., Vinding, R. K., Bisgaard, Hans, Bønnelykke, Klaus, Wang, Y., Graff, M., Voortman, T., van Rooij, F. J. A., Hofman, A., van Heemst, D., Noordam, R., Estampador, A. C., V Varga, Tibor, Enzenbach, C., Scholz, M., Thiery, J., Burkhardt, R., Orho-Melander, M., Schulz, C., Ericson, U., Sonestedt, E., Kubo, M., Akiyama, M., Zhou, A., Oskari Kilpeläinen, Tuomas, Hansen, Torben, Kleber, M. E., Delgado, G., McCarthy, M., Lemaitre, R. N., Felix, J. F., Jaddoe, V. W. V., Wu, Y., Mohlke, K. L., Lehtimäki, T., Wang, C. A., Pennell, C. E., Schunkert, H., Kessler, T., Zeng, L., Willenborg, C., Peters, A., Lieb, W., Grote, V., Rzehak, P., Koletzko, B., Erdmann, J., Munz, M., Wu, T., He, M., Yu, C., Lecoeur, C., Froguel, P., Corella, D., Moreno, L. A., Lai, C., Pitkänen, N., Boreham, C. A., Ridker, P. M., Rosendaal, F. R., de Mutsert, R., Power, C., Paternoster, L., Sørensen, Thorkild I.A., Tjønneland, Anne, Overvad, K., Djousse, L., Rivadeneira, F., Lee, N. R., Raitakari, O. T., Kähönen, M., Viikari, J., Langhendries, J., Escribano, J., Verduci, E., Dedoussis, G., König, I., Balkau, B., Coltell, O., Dallongeville, J., Meirhaeghe, A., Amouyel, P., Gottrand, F., Pahkala, K., Niinikoski, H., Hyppönen, E., März, W., Mackey, D. A., Gruszfeld, D., Tucker, K. L., Fumeron, F., Estruch, R., Ordovas, J. M., Arnett, D. K., Mook-Kanamori, D. O., Mozaffarian, D., Psaty, B. M., North, K. E., Chasman, D. I. & Qi, L., 7 May 2020, In : European Journal of Epidemiology. 13 p.

    Research output: Contribution to journalJournal article

  3. E-pub ahead of print

    Multi-site SUMOylation restrains DNA polymerase η interactions with DNA damage sites

    Guérillon, C., Smedegaard, S., Hendriks, Ivo Alexander, Nielsen, Michael Lund & Mailand, Niels, 29 Apr 2020, In : The Journal of Biological Chemistry.

    Research output: Contribution to journalJournal article

  4. E-pub ahead of print
  5. E-pub ahead of print
  6. Published

    A Compact Quadrupole-Orbitrap Mass Spectrometer with FAIMS Interface Improves Proteome Coverage in Short LC Gradients

    Bekker-Jensen, D. B., Martínez-Val, A., Steigerwald, S., Rüther, Patrick, Fort, K. L., Arrey, T. N., Harder, A., Makarov, A. & Olsen, Jesper Velgaard, Apr 2020, In : Molecular and Cellular Proteomics. 19, 4, p. 716-729 14 p.

    Research output: Contribution to journalJournal article

  7. 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 article

  8. Published

    A dynamic charge-charge interaction modulates PP2A:B56 substrate recruitment

    Wang, X., Garvanska, Dimitriya Hristoforova, Nasa, I., Ueki, Yumi, Zhang, G., Kettenbach, A. N., Peti, W., Nilsson, Jakob & Page, R., 20 Mar 2020, In : eLife. 9

    Research output: Contribution to journalJournal article

  9. E-pub ahead of print

    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., 18 Mar 2020, In : Archives of Toxicology.

    Research output: Contribution to journalJournal article

  10. 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., 17 Mar 2020, In : Cancers. 12, 3

    Research output: Contribution to journalJournal article

  11. Published

    A Multi-Omics Approach to Liver Diseases: Integration of Single Nuclei Transcriptomics with Proteomics and HiCap Bulk Data in Human Liver

    Cavalli, M., Diamanti, K., Pan, G., Spalinskas, R., Kumar, C., Deshmukh, Atul Shahaji, Mann, Matthias, Sahlén, P., Komorowski, J. & Wadelius, C., 16 Mar 2020, In : O M I C S: A Journal of Integrative Biology.

    Research output: Contribution to journalJournal article

  12. Accepted/In press

    A streamlined mass spectrometry-based proteomics workflow for large scale FFPE tissue analysis

    Coscia, Fabian, Doll, S., Bech, Jacob Mathias, Schweizer, L., Mund, Andreas, Lengyel, E., Lindebjerg, J., Madsen, G. I., Moreira, José & Mann, Matthias, 10 Mar 2020, (Accepted/In press) In : Journal of Pathology.

    Research output: Contribution to journalJournal article

  13. Published

    Comparing 22 Popular Phosphoproteomics Pipelines for Peptide Identification and Site Localization

    Locard-Paulet, Marie, Bouyssié, D., Froment, C., Burlet-Schiltz, O. & Jensen, Lars Juhl, 6 Mar 2020, In : Journal of Proteome Research. 19, 3, p. 1338-1345 8 p.

    Research output: Contribution to journalJournal article

  14. Published

    Two novel S1 peptidases from Amycolatopsis keratinophila subsp. keratinophila D2T degrading keratinous slaughterhouse by-products

    Espersen, R., Falco, F. C., Hägglund, Per Mårten, Gernaey, K. V., Lantz, A. E. & Svensson, B., 1 Mar 2020, In : Applied Microbiology and Biotechnology. 104, 6, p. 2513-2522 10 p.

    Research output: Contribution to journalJournal article

  15. Published

    Similar genomic patterns of clinical infective endocarditis and oral isolates of Streptococcus sanguinis and Streptococcus gordonii

    Iversen, Katrine Højholt, Rasmussen, L. H., Al-Nakeeb, K., Armenteros, J. J. A., Jensen, C. S., Dargis, R., Lukjancenko, O., Justesen, U. S., Moser, Claus Ernst, Rosenvinge, F. S., Nielsen, X. C., Christensen, J. J. & Rasmussen, Simon, 17 Feb 2020, In : Scientific Reports. 10, 1, p. 2728

    Research output: Contribution to journalJournal article

  16. 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 article

  17. 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 article

  18. 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 article

  19. E-pub ahead of print

    Gut microbial changes of patients with psychotic and affective disorders: A systematic review

    Vindegaard, N., Speyer, H., Nordentoft, Merete, Rasmussen, S. & Benros, M. E., 14 Jan 2020, In : Schizophrenia Research.

    Research output: Contribution to journalJournal article

  20. 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 article

  21. Published

    Higher burden of rare frameshift indels in genes related to synaptic transmission separate familial hemiplegic migraine from common types of migraine

    Rasmussen, A. H., Olofsson, I., Chalmer, M. A., Olesen, Jes & Hansen, Thomas Folkmann, 1 Jan 2020, In : Journal of Medical Genetics. 106640.

    Research output: Contribution to journalJournal article

  22. Accepted/In press

    Mechanisms of site-specific dephosphorylation and kinase opposition imposed by PP2A regulatory subunits

    Kruse, Thomas, Gnosa, Sebastian Peter, Nasa, I., Garvanska, Dimitriya Hristoforova, bmk286, bmk286, Nguyen, H., Samsøe-Petersen, Jacob, Lopez-Mendez, B., Hertz, Emil Peter Thrane, Schwarz, J., Pena, H. S., Nikodemus, Denise, Kveiborg, Marie, Kettenbach, A. N. & Nilsson, Jakob, 1 Jan 2020, (Accepted/In press) In : EMBO Journal. p. 1-18 e103695.

    Research output: Contribution to journalJournal article

  23. Accepted/In press

    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, 1 Jan 2020, (Accepted/In press) In : Journal of Psychopharmacology. 8 p.

    Research output: Contribution to journalJournal article

  24. E-pub ahead of print

    Heterogeneity of treatment effect of prophylactic pantoprazole in adult ICU patients: a post hoc analysis of the SUP-ICU trial

    Granholm, A., Marker, S., Krag, M., Zampieri, F. G., Thorsen-Meyer, H., Kaas-Hansen, Benjamin Skov, van der Horst, I. C. C., Lange, Theis, Wetterslev, J., Perner, Anders & Møller, Morten Hylander, Jan 2020, In : Intensive Care Medicine.

    Research output: Contribution to journalJournal article

  25. Published

    A draft genome sequence of the elusive giant squid, Architeuthis dux

    Rodrigues da Fonseca, Rute Andreia, Couto, A., Machado, A. M., Brejova, B., Albertin, C. B., Silva, F., Gardner, P., Baril, T., Hayward, A., Campos, A., Ribeiro, Â. M., Barrio-Hernandez, I., Hoving, H., Tafur-Jimenez, R., Chu, C., Frazão, B., Petersen, Bent, Peñaloza, F., Musacchia, F., Alexander, G. C., Osório, H., Winkelmann, I., Simakov, O., Rasmussen, Simon, Rahman, M. Z., Pisani, D., Vinther, J., Jarvis, E., Zhang, Guojie, Strugnell, J. M., Castro, L. F. C., Fedrigo, O., Patricio, M., Li, Q., Rocha, S., Antunes, A., Wu, Y., Ma, B., Sanges, R., Vinar, T., Blagoev, B., Sicheritz-Pontén, Thomas, Nielsen, Rasmus & Gilbert, M Thomas P, 2020, In : GigaScience. 9, 1, giz152.

    Research output: Contribution to journalJournal article

  26. E-pub ahead of print

    Azo dying of alpha-keratin material improves microbial keratinase screening and standardization

    Gonzalo, M., Espersen, R., Al-Soud, W. A., Cristiano Falco, F., Hägglund, Per Mårten, Sørensen, Søren Johannes, Svensson, B. & Jacquiod, S., 2020, In : Microbial Biotechnology.

    Research output: Contribution to journalJournal article

  27. Published

    CAncer bioMarker Prediction Pipeline (CAMPP) - A standardized framework for the analysis of quantitative biological data

    Terkelsen, T., Krogh, Anders & Papaleo, Elena, 2020, In : PLOS Computational Biology. 16, 3, 20 p., e1007665.

    Research output: Contribution to journalJournal article

  28. Published

    CRISPR-Cas12a: functional overview and applications

    Paul, Bijoya & Montoya, Guillermo, 2020, In : Biomedical Journal. 43, 1, p. 8-17

    Research output: Contribution to journalReview

  29. Published

    Combined burden and functional impact tests for cancer driver discovery using DriverPower

    PCAWG Drivers and Functional Interpretation Working Group, P. D. A. F. I. W. G. & PCAWG Consortium, P. C., 2020, In : Nature Communications. 11, 1, 734.

    Research output: Contribution to journalJournal article

  30. Published

    Conflicting associations between dietary patterns and changes of anthropometric traits across subgroups of middle-aged women and men

    Jiang, L., Audouze, K., Romero Herrera, Jose Alejandro, Ängquist, Lars, Kjærulff, S. K., Izarzugaza, J. M. G., Tjønneland, Anne, Halkjær, J., Overvad, K., Sørensen, Thorkild I.A. & Brunak, Søren, 2020, In : Clinical Nutrition. 39, 1, p. 265-275

    Research output: Contribution to journalJournal article

  31. Accepted/In press

    Cross-sectional study identifies lower risk of Staphylococcus aureus nasal colonization in Danish blood donors with hidradenitis suppurativa symptoms

    Dinh, K. M., Erikstrup, L. T., Andersen, R. K., Andersen, P. S., Mikkelsen, S., Kjerulff, B. D., Burgdorf, K. S., Hansen, Thomas Folkmann, Nielsen, K. R., Hjalgrim, H., Jemec, Gregor, Ullum, Henrik, Erikstrup, C. & Pedersen, O. B., 2020, (Accepted/In press) In : British Journal of Dermatology.

    Research output: Contribution to journalLetter

  32. Published

    Grand challenges in nanomedicine

    Wu, L., Wang, Danyang & Li, Z., 2020, In : Materials Science and Engineering C: Materials for Biological Applications. 106, 110302.

    Research output: Contribution to journalReview

  33. Published

    HBO1 is required for the maintenance of leukaemia stem cells

    MacPherson, L., Anokye, J., Yeung, M. M., Lam, E. Y. N., Chan, Y., Weng, C., Yeh, P., Knezevic, K., Butler, M. S., Hoegl, A., Chan, K., Burr, M. L., Gearing, L. J., Willson, T., Liu, J., Choi, J., Yang, Y., Bilardi, R. A., Falk, H., Nghi Nguyen, Stupple, P. A., Peat, T. S., Zhang, M., De Silva, M., Carrasco-Pozo, C., Avery, V. M., Khoo, S., Dolezal, O., Dennis, M. L., Nuttall, S., Surjadi, R., Newman, J., Ren, B., Leaver, D. J., Sun, Y., Baell, J. B., Dovey, O., Vassiliou, G. S., Grebien, F., Dawson, S., Street, I. P., Monahan, B. J., Burns, C. J., Choudhary, Chuna Ram, Blewitt, M. E., Voss, A. K., Thomas, T. & Dawson, M. A., 2020, In : Nature. 577, 7789, p. 266-270

    Research output: Contribution to journalJournal article

  34. Published

    Immune Profiling of Human Gut-Associated Lymphoid Tissue Identifies a Role for Isolated Lymphoid Follicles in Priming of Region-Specific Immunity

    Fenton, T. M., Jørgensen, P. B., Niss, Kristoffer, Rubin, S. J. S., Mörbe, U. M., Riis, Lene Buhl, Da Silva, C., Plumb, A., Vandamme, J., Jakobsen, H. L., Brunak, Søren, Habtezion, A., Nielsen, Ole Haagen, Johansson-Lindbom, B. & Agace, W. W., 2020, In : Immunity. 52, 3, p. 557-570, e1-e6

    Research output: Contribution to journalJournal article

  35. Published

    Interpreting pathways to discover cancer driver genes with Moonlight

    Colaprico, A., Olsen, C., Bailey, M. H., Odom, G. J., Terkelsen, T., Silva, T. C., Olsen, A. V., Cantini, L., Zinovyev, A., Barillot, E., Noushmehr, H., Bertoli, G., Castiglioni, I., Cava, C., Bontempi, G., Chen, X. S. & Papaleo, Elena, 2020, In : Nature Communications. 11, 17 p., 69.

    Research output: Contribution to journalJournal article

  36. E-pub ahead of print

    JIB.tools 2.0 - A Bioinformatics Registry for Journal Published Tools with Interoperability to bio.tools

    Friedrichs, M., Shoshi, A., Chmura, Piotr Jaroslaw, Ison, J., Schwammle, V., Schreiber, F., Hofestadt, R. & Sommer, B., 2020, In : Journal of integrative bioinformatics. 16, 8 p.

    Research output: Contribution to journalJournal article

  37. Published

    Lipidomic profiles, lipid trajectories and clinical biomarkers in female elite endurance athletes

    V Varga, Tibor, Ali, A., Romero Herrera, Jose Alejandro, Ahonen, L. L., Mattila, I. M., Al-Sari, N. H., Legido-Quigley, C., Skouby, Sven O., Brunak, Søren & Tornberg, Å. B., 2020, In : Scientific Reports. 10, 9 p., 2349.

    Research output: Contribution to journalJournal article

  38. Published

    Membrane Protein Cryo-EM: Cryo-Grid Optimization and Data Collection with Protein in Detergent

    Bloch, Magnus Borup, Santiveri, Mònica & Taylor, Nicholas M I, 2020, Expression, Purification, and Structural Biology of Membrane Proteins. Perez, C. & Maier, T. (eds.). Humana Press, p. 227-244 18 p. (Methods in Molecular Biology, Vol. 2127).

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

  39. Published

    Molecular Basis of the Mechanisms Controlling MASTL

    Hermida, D., Mortuza, G. B., Pedersen, A., Pozdnyakova, I., Nguyen, T. T. T. N., Maroto, M., Williamson, M., Ebersole, T., Cazzamali, G., Rand, Kasper Dyrberg, Olsen, J. V., Malumbres, M. & Montoya, Guillermo, 2020, In : Molecular & Cellular Proteomics. 19, 2, p. 326-343

    Research output: Contribution to journalJournal article

  40. Published

    Molecular switches in signaling networks as a mechanism of action for oncogenic mutations in proximity of tyrosine residues

    Emdal, Kristina Bennet & Lundby, Alicia, 2020, In : Molecular & Cellular Oncology. 7, 1, 3 p., e1692643.

    Research output: Contribution to journalComment/debate

  41. Published

    Physiological Tolerance to ssDNA Enables Strand Uncoupling during DNA Replication

    Ercilla, A., Benada, Jan, Gadi, Amitash, Zonderland, Gijs, Baldi, G., Somyajit, Kumar, Ochs, F., Costanzo, V., Lukas, Jiri & Toledo Lazaro, Luis Ignacio, 2020, In : Cell Reports. 30, 7, p. 2416-2429

    Research output: Contribution to journalJournal article

  42. E-pub ahead of print

    Proposed new diagnostic criteria for chronic migraine

    Chalmer, M. A., Hansen, Thomas Folkmann, Lebedeva, E. R., Dodick, D. W., Lipton, R. B. & Olesen, Jes, 2020, In : Cephalalgia.

    Research output: Contribution to journalJournal article

  43. 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 article

  44. 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/debate

  45. Published
  46. 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 article

  47. 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 article

  48. 2019
  49. Published

    High-Throughput Sequencing-Based Investigation of Viruses in Human Cancers by Multienrichment Approach

    Mollerup, S., Asplund, M., Friis-Nielsen, J., Kjartansdóttir, K. R., Fridholm, H., Hansen, T. A., Romero Herrera, Jose Alejandro, Barnes, Christopher James, Jensen, R. H., Richter, S. R., Nielsen, Ida Broman, Pietroni, C., Alquezar-Planas, D. E., Rey de la Iglesia, Alba, Olsen, Pernille Vibeke Selmer, Rajpert-De Meyts, E., Groth-Pedersen, L., von Buchwald, Christian, Jensen, D. H., Gniadecki, R., Høgdall, Estrid Vilma Solyom, Langhoff, J. L., Pete, I., Vereczkey, I., Baranyai, Z., Dybkaer, K., Johnsen, H. E., Steiniche, T., Hokland, P., Rosenberg, Jacob, Baandrup, U., Sicheritz-Pontén, Thomas, Willerslev, Eske, Brunak, Søren, Lund, O., Mourier, T., Vinner, Lasse, Izarzugaza, J. M. G., Nielsen, L. P. & Hansen, Anders Johannes, 15 Oct 2019, In : The Journal of Infectious Diseases. 220, 8, p. 1312-1324

    Research output: Contribution to journalJournal article

  50. Published

    Herpes Simplex Virus Type 1 infection is associated with suicidal behavior and first registered psychiatric diagnosis in a healthy population

    Nissen, J., Trabjerg, B., Pedersen, M. G., Banasik, Karina, Pedersen, Ole Birger Vesterager, Sørensen, E., Nielsen, K. R., Erikstrup, C., Petersen, M. S., Paarup, H. M., Bruun-Rasmussen, P., Westergaard, David, Hansen, Thomas Folkmann, Pedersen, C. B., Werge, Thomas, Torrey, F., Hjalgrim, H., Mortensen, P. B., Yolken, R., Brunak, Søren, Ullum, Henrik & Burgdorf, K. S., Oct 2019, In : Psychoneuroendocrinology. 108, p. 150-154

    Research output: Contribution to journalJournal article

  51. 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, Vestergaard, Henrik, 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 article

  52. Published

    DBDS Genomic Cohort, a prospective and comprehensive resource for integrative and temporal analysis of genetic, environmental and lifestyle factors affecting health of blood donors

    Hansen, Thomas Folkmann, Banasik, Karina, Erikstrup, C., Pedersen, Ole Birger Vesterager, Westergaard, David, Chmura, P. J., Nielsen, K., Thørner, L., Hjalgrim, H., Paarup, H., Larsen, M. A. H., Petersen, M., Jennum, Poul, Andersen, S., Nyegaard, M., Jemec, Gregor, Olesen, Jes, Werge, Thomas, Johansson, P. I., Sørensen, E., Brunak, Søren, Ullum, Henrik & Burgdorf, K. S., 9 Jun 2019, In : BMJ Open. 9, 6, p. 1-7 7 p., e028401.

    Research output: Contribution to journalJournal article

  53. Published

    Functional Differences between Synaptic Mitochondria from the Striatum and the Cerebral Cortex

    Petersen, M. H., Willert, C. W., Andersen, Jens Velde, Waagepetersen, Helle S., Skotte, Niels Henning & Nørremølle, Anne, May 2019, In : Neuroscience. 406, p. 432-443 12 p.

    Research output: Contribution to journalJournal article

  54. Published

    FoxK1 and FoxK2 in insulin regulation of cellular and mitochondrial metabolism

    Sakaguchi, M., Cai, W., Wang, C., Cederquist, C. T., Damasio, M., Homan, E. P., Batista, T., Ramirez, A. K., Gupta, M. K., Steger, M., Albrechtsen, Nicolai Jacob Wewer, Singh, S. K., Araki, E., Mann, M., Enerbäck, S. & Kahn, C. R., 5 Apr 2019, In : Nature Communications. 10, 1, 17 p., 1582.

    Research output: Contribution to journalJournal article

  55. Published

    Molecular dynamics-guided discovery of an ago-allosteric modulator for GPR40/FFAR1

    Lückmann, Michael, Trauelsen, Mette, Bentsen, Marie Aare, Nissen, Tinne Amalie Damgaard, Martins, J., Fallah, Z., Nygaard, Mads Mørup, Papaleo, Elena, Lindorff-Larsen, Kresten, Schwartz, Thue W. & Frimurer, Thomas Michael, 2 Apr 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 14, p. 7123-7128

    Research output: Contribution to journalJournal article

  56. Published

    Palaeoproteomic analysis of Early Pleistocene Gigantopithecus blacki

    Welker, Frido, Ramos Madrigal, Jazmin, Wang, W., Kuhlwilm, M., Montero, M. D. M., Demeter, Fabrice, Lalueza-Fox, C., Marques-Bonet, T., Olsen, Jesper Velgaard & Cappellini, Enrico, Mar 2019, In : American Journal of Physical Anthropology. 168, suppl. 68, p. 265-266

    Research output: Contribution to journalConference abstract in journal

  57. 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 article

  58. Published

    Acetylation of intrinsically disordered regions regulates phase separation

    Saito, M., Hess, D., Eglinger, J., Fritsch, A. W., Kreysing, M., Weinert, B. T., Choudhary, Chuna Ram & Matthias, P., Jan 2019, In : Nature Chemical Biology. 15, 1, p. 51-61

    Research output: Contribution to journalJournal article

  59. Published

    53BP1 nuclear bodies enforce replication timing at under-replicated DNA to limit heritable DNA damage

    Spies, Julian, Lukas, Claudia, Somyajit, Kumar, Rask, M., Lukas, Jiri & Neelsen, K. J., 2019, In : Nature Cell Biology. 21, p. 487-497

    Research output: Contribution to journalJournal article

  60. Published
  61. Published

    A Brief History of Protein Sorting Prediction

    Nielsen, H., Tsirigos, Konstantinos, Brunak, Søren & von Heijne, G., 2019, In : The Protein Journal. 38, 3, p. 200-216 17 p.

    Research output: Contribution to journalReview

  62. Published

    A Consensus Binding Motif for the PP4 Protein Phosphatase

    Ueki, Yumi, Kruse, Thomas, Weisser, Melanie, Sundell, G. N., Larsen, M. S. Y., Mendez, B. L., Jenkins, N. P., Garvanska, Dimitriya Hristoforova, Cressey, L., Zhang, G., Davey, N., Montoya, Guillermo, Ivarsson, Y., Kettenbach, A. N. & Nilsson, Jakob, 2019, In : Molecular Cell. 76, 6, p. 953-964.e6

    Research output: Contribution to journalJournal article

  63. Published

    A Guide to Dictionary-Based Text Mining

    Cook, H. V. & Jensen, Lars Juhl, 2019, Bioinformatics and Drug Discovery. Larson, R. S. & Oprea, T. I. (eds.). 3 ed. Humana Press, Vol. 1939. p. 73-89 17 p. (Methods in Molecular Biology).

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

  64. Published

    A chromatin-based signalling mechanism directs the switch from mutagenic to error-free repair of DNA double strand breaks

    Bartke, T. & Groth, Anja, 2019, In : Molecular & Cellular Oncology. 6, 4, 3 p., 1605820.

    Research output: Contribution to journalJournal article

  65. Published

    A generic deep convolutional neural network framework for prediction of receptor–ligand interactions - NetPhosPan: application to kinase phosphorylation prediction

    Fenoy, E., Izarzugaza, J. M. G., Jurtz, V., Brunak, Søren & Nielsen, M., 2019, In : Bioinformatics. 35, 7, p. 1098-1107

    Research output: Contribution to journalJournal article

  66. Published

    A large size-selective DNA nanopore with sensing applications

    Thomsen, R. P., Malle, Mette Galsgaard, Okholm, A. H., Krishnan, S., Bohr, Søren Schmidt-Rasmussen, Sørensen, R. S., Ries, O., Vogel, S., Simmel, F. C., Hatzakis, Nikos & Kjems, J., 2019, In : Nature Communications. 10, 1

    Research output: Contribution to journalJournal article

  67. Published

    A large-cohort, longitudinal study determines pre-cancer disease routes across different cancer types

    Hjaltelin, Jessica Xin, Helleberg, M., Jensen, A. B., Brunak, Søren & Lundgren, Jens, 2019, In : Cancer Research. 79, 4, p. 864-872

    Research output: Contribution to journalJournal article

  68. Published

    A quantitative Streptococcus pyogenes - human protein - protein interaction map reveals localization of opsonizing antibodies

    Happonen, L., Hauri, S., Svensson Birkedal, G., Karlsson, C., de Neergaard, T., Khakzad, H., Nordenfelt, P., Wikström, M., Wisniewska, M., Björck, L., Malmström, L. & Malmström, J., 2019, In : Nature Communications. 10, 15 p., 2727.

    Research output: Contribution to journalJournal article

  69. Published

    A spatially resolved proteomic atlas of human skin and its associated immune system

    Dyring-Andersen, Beatrice, Coscia, Fabian, Santos, A., Løvendorf, M. B., Sørensen, L. B. P., Niu, Lili, Andersen, J. L., Clark, R., Skov, L., Teunissen, M. B. & Mann, Matthias, 2019, In : Journal of Investigative Dermatology. 139, 9, suppl., p. S259 1 p.

    Research output: Contribution to journalConference abstract in journal

  70. Published

    A spatially resolved proteomic atlas of psoriatic skin

    Dyring-Andersen, Beatrice, Lovendorf, M. B., Santos, A., Coscia, Fabian, Sørensen, L. B. P., Niu, Lili, Andersen, J. L., Teunissen, M. B., Skov, L. & Mann, Matthias, 2019, In : Journal of Investigative Dermatology. 139, 9, suppl., p. S260 1 p.

    Research output: Contribution to journalConference abstract in journal

  71. Published

    Acetyltransferases Gcn5 and PCAF regulate B cell development

    Beck, C., Daniel, J. & Oksenych, V., 2019, In : Scandinavian Journal of Immunology. 90, 6

    Research output: Contribution to journalConference abstract in journal

  72. Published

    Alterations of the interactome of Bcl-2 proteins in breast cancer at the transcriptional, mutational and structural level

    Konig, S. M., Rissler, V., Terkelsen, T., Lambrughi, M. & Papaleo, Elena, 2019, In : P L o S One. 15, 12, 28 p., e1007485.

    Research output: Contribution to journalJournal article

  73. Published

    Alternative Translation Initiation Generates a Functionally Distinct Isoform of the Stress-Activated Protein Kinase MK2

    Trulley, P., Snieckute, Goda, Bekker-Jensen, D., Menon, M. B., Freund, R., Kotlyarov, A., Olsen, Jesper Velgaard, Diaz-Muñoz, M. D., Turner, M., Bekker-Jensen, Simon Holst, Gaestel, M. & Tiedje, C., 2019, In : Cell Reports. 27, 10, p. 2859-2870.e6 19 p.

    Research output: Contribution to journalJournal article

  74. Published

    An advanced strategy for comprehensive profiling of ADP-ribosylation sites using mass spectrometry-based proteomics

    Hendriks, Ivo Alexander, Buch-Larsen, Sara Charlotte & Nielsen, Michael Lund, 2019, In : Molecular and Cellular Proteomics. 18, 5, p. 1010-1026

    Research output: Contribution to journalJournal article

  75. Published

    An unorthodox partnership in DNA repair pathway choice

    Typas, Dimitris & Mailand, Niels, 2019, In : EMBO Reports. 20, 11, e49105.

    Research output: Contribution to journalEditorial

  76. Published

    Analysis and Interpretation of Protein Post-Translational Modification Site Stoichiometry

    Prus, Gabriela Zofia, Hoegl, A., Weinert, B. T. & Choudhary, Chuna Ram, 2019, In : Trends in Biochemical Sciences. 44, 11, p. 943-960

    Research output: Contribution to journalReview

  77. Published

    Analysis of Predicted Host-Parasite Interactomes Reveals Commonalities and Specificities Related to Parasitic Lifestyle and Tissues Tropism

    Cuesta-Astroz, Y., Santos, A., Oliveira, G. & Jensen, Lars Juhl, 2019, In : Frontiers in Immunology. 10, 17 p., 212.

    Research output: Contribution to journalJournal article

  78. Published

    Analysis of human acetylation stoichiometry defines mechanistic constraints on protein regulation

    Hansen, B. K., Gupta, R., Baldus, L., Lyon, D., Narita, Takeo, Lammers, M., Choudhary, Chuna Ram & Weinert, B. T., 2019, In : Nature Communications. 10, 11 p., 1055.

    Research output: Contribution to journalJournal article

  79. Published

    Anti-HER2 single domain antibody-conjugated dendrimers for targeted delivery of truncated-Bid transgene to breast cancer cells

    Sofla, F. J. I., Rahbarizadeh, F., Ahmadvand, D., Nomani, A. & Vernet, E., 2019, In : Journal of Bioactive and Compatible Polymers. 34, 1, p. 39-57

    Research output: Contribution to journalJournal article

  80. Published

    Bile acids drive colonic secretion of glucagon-like-peptide 1 and peptide-YY in rodents

    Christiansen, Charlotte Bayer, Trammell, Sam, Albrechtsen, Nicolai Jacob Wewer, Schoonjans, K., Albrechtsen, Reidar, Gillum, Matthew Paul, Kuhre, Rune Ehrenreich & Holst, Jens Juul, 2019, In : American Journal of Physiology: Gastrointestinal and Liver Physiology. 316, 5, p. G574-G584 11 p.

    Research output: Contribution to journalJournal article

  81. Published

    BioReader: a text mining tool for performing classification of biomedical literature

    Simon, C., Davidsen, K., Hansen, C., Seymour, E., Barnkob, M. B. & Olsen, L. R., 2019, In : BMC Bioinformatics. 19, Suppl. 13, 6 p., 57.

    Research output: Contribution to journalConference article

  82. Published

    Bone Status in Obese, Non-diabetic, Antipsychotic-Treated Patients, and Effects of the Glucagon-Like Peptide-1 Receptor Agonist Exenatide on Bone Turnover Markers and Bone Mineral Density

    Eriksson, Robert, Broberg, B. V., Ishoy, P. L., Bak, N., Andersen, U. B., Jorgensen, N. R., Knop, Filip Krag & Ebdrup, Bjørn, 2019, In : Frontiers in Psychiatry. 9, 7 p., 781.

    Research output: Contribution to journalJournal article

  83. Published

    Breast milk alkylglycerols sustain beige adipocytes through adipose tissue macrophages

    Yu, H., Dilbaz, S., Coßmann, J., Hoang, A. C., Diedrich, V., Herwig, A., Harauma, A., Hoshi, Y., Moriguchi, T., Landgraf, K., Körner, A., Lucas, C., Brodesser, S., Balogh, L., Thuróczy, J., Karemore, Gopal, Kuefner, M. S., Park, E. A., Rapp, C., Travers, J. B. & Röszer, T., 2019, In : The Journal of Clinical Investigation. 129, 6, p. 2485-2499

    Research output: Contribution to journalJournal article

  84. Published

    Catching Lipid Droplet Contacts by Proteomics

    Krahmer, N. & Mann, Matthias, 2019, In : Contact. 2, p. 1-8 8 p.

    Research output: Contribution to journalReview

  85. Published

    Characterization of Familial and Sporadic Migraine

    Ravn, J., Chalmer, M. A., Oehrstroem, E. L., Kogelman, L. J. A. & Hansen, Thomas Folkmann, 2019, In : Headache. 59, 10, p. 1802-1807 6 p.

    Research output: Contribution to journalJournal article

  86. Published

    Citrullination of HP1γ chromodomain affects association with chromatin

    Wiese, M., Bannister, A. J., Basu, S., Boucher, W., Wohlfahrt, K., Christophorou, M. A., Nielsen, Michael Lund, Klenerman, D., Laue, E. D. & Kouzarides, T., 2019, In : Epigenetics & Chromatin. 12, 17 p., 21.

    Research output: Contribution to journalJournal article

  87. Published

    Clinical association to FKBP5 rs1360780 in patients with depression

    Dam, Henrik, Buch, J. O. D., Nielsen, Annelaura Bach, Weikop, P., Werge, Thomas & Jørgensen, M. B., 2019, In : Psychiatric Genetics. 29, 6, p. 220-225 6 p.

    Research output: Contribution to journalJournal article

  88. Published

    CoCoScore: Context-aware co-occurrence scoring for text mining applications using distant supervision

    Junge, A. & Jensen, Lars Juhl, 2019, In : Bioinformatics. 8 p.

    Research output: Contribution to journalJournal article

  89. Published
  90. Published

    Combined GLP-1, Oxyntomodulin, and Peptide YY Improves Body Weight and Glycemia in Obesity and Prediabetes/Type 2 Diabetes: A Randomized Single-Blinded Placebo Controlled Study

    Behary, P., Tharakan, G., Alexiadou, K., Johnson, N., Albrechtsen, Nicolai Jacob Wewer, Kenkre, J., Cuenco, J., Hope, D., Anyiam, O., Choudhury, S., Alessimii, H., Poddar, A., Minnion, J., Doyle, C., Frost, G., Le Roux, C., Purkayastha, S., Moorthy, K., Dhillo, W., Holst, Jens Juul, Ahmed, A. R., Prevost, A. T., Bloom, S. R. & Tan, T. M., 2019, In : Diabetes Care. 42, 7, 8 p., dc190449.

    Research output: Contribution to journalJournal article

  91. Published

    Combing the Hairball: Improving Visualization of miRNA-Target Interaction Networks

    Russo, Francesco, Hjaltelin, Jessica Xin, Romero Herrera, Jose Alejandro & Brunak, Søren, 2019, MicroRNA Target Identification: Methods and Protocols. Laganà, A. (ed.). Humana Press, p. 279-289 11 p. (Methods in Molecular Biology, Vol. 1970).

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

  92. Published
  93. Published

    Comparing migraine with and without aura to healthy controls using RNA sequencing

    Kogelman, L. J. A., Falkenberg, K., Halldorsson, G. H., Poulsen, L. U., Worm, J., Ingason, A., Stefansson, H., Stefansson, K., Hansen, Thomas Folkmann & Olesen, Jes, 2019, In : Cephalalgia. 39, 11, p. 1435-1444

    Research output: Contribution to journalJournal article

  94. Published

    Comparison of quantitative trait loci methods: Total expression and allelic imbalance method in brain RNA-seq

    Gådin, J. R., Buil, A., Colantuoni, C., Jaffe, A. E., Nielsen, J., Shin, J., Hyde, T. M., Kleinman, J. E., Plath, N., Eriksson, P., Brunak, Søren, Didriksen, M., Weinberger, D. R., Folkersen, L. & BrainSeq Consortium, B. C., 2019, In : PLoS ONE. 14, 6, 16 p., e0217765.

    Research output: Contribution to journalJournal article

  95. Published

    Contaminating viral sequences in high-throughput sequencing viromics: a linkage study of 700 sequencing libraries

    Asplund, M., Kjartansdóttir, K. R., Mollerup, S., Vinner, Lasse, Fridholm, H., Romero Herrera, Jose Alejandro, Friis-Nielsen, J., Hansen, T. A., Jensen, R. H., Nielsen, Ida Broman, Richter, S. R., Rey de la Iglesia, Alba, Matey-Hernandez, M. L., Alquezar-Planas, D. E., Olsen, Pernille Vibeke Selmer, Sicheritz-Pontén, Thomas, Willerslev, Eske, Lund, O., Brunak, Søren, Mourier, T., Nielsen, L. P., Izarzugaza, J. M. G. & Hansen, Anders Johannes, 2019, In : Clinical Microbiology and Infection. 25, 10, p. 1277-1285

    Research output: Contribution to journalJournal article

  96. Published

    Cyprus Women's Health Research (COHERE) initiative: determining the relative burden of women's health conditions and related co-morbidities in an Eastern Mediterranean population

    Hocaoglu, M. B., Gurkas, S., Karaderi, Tugce, Taneri, B., Erguler, K., Barin, B., Bilgin, E. M., Eralp, G., Allison, M., Findikli, N., Boynukalin, K., Bahceci, M., Naci, H., Vincent, K., Missmer, S. A., Becker, C. M., Zondervan, K. T. & Rahmioglu, N., 2019, In : BMC Women's Health. 19, 7 p., 50.

    Research output: Contribution to journalJournal article

  97. Published

    Cytoscape stringApp: Network analysis and visualization of proteomics data

    Doncheva, Nadezhda Tsankova, Morris, J., Gorodkin, Jan & Jensen, Lars Juhl, 2019, In : Journal of Proteome Research. 18, 2, p. 623-632

    Research output: Contribution to journalJournal article

  98. Published

    Design, implementation, and operation of a rapid, robust named entity recognition web service

    Pletscher-Frankild, S. & Jensen, Lars Juhl, 2019, In : Journal of Cheminformatics. 11, 6 p., 19.

    Research output: Contribution to journalJournal article

  99. Published

    Development, use, application of novel TIMS-Tof system

    Mann, Matthias, 2019, In : Molecular & Cellular Proteomics. 18, 8, p. S20 1 p.

    Research output: Contribution to journalConference abstract in journal

  100. Published

    Direct observation of Thermomyces lanuginosus lipase diffusional states by Single Particle Tracking and their remodeling by mutations and inhibition

    Bohr, Søren Schmidt-Rasmussen, Lund, P. M., Kallenbach, A. S., Pinholt, H., Thomsen, J., Iversen, L., Svendsen, A., Christensen, S. M. & Hatzakis, Nikos, 2019, In : Scientific Reports. 9, 11 p., 16169.

    Research output: Contribution to journalJournal article

  101. Published

    Discovery of biomarkers for glycaemic deterioration before and after the onset of type 2 diabetes: descriptive characteristics of the epidemiological studies within the IMI DIRECT Consortium

    Koivula, R. W., Forgie, I. M., Kurbasic, A., Viñuela, A., Heggie, A., Giordano, G. N., Hansen, Tue Haldor, Hudson, M., Koopman, A. D. M., Rutters, F., Siloaho, M., Allin, Kristine Højgaard, Brage, S., Brorsson, C. A., Dawed, A. Y., De Masi, F., Groves, C. J., Kokkola, T., Mahajan, A., Perry, M. H., Rauh, S. P., Ridderstråle, M., Teare, H. J. A., Thomas, E. L., Tura, A., Vestergaard, Henrik, White, T., Adamski, J., Bell, J. D., Beulens, J. W., Brunak, Søren, Dermitzakis, E. T., Froguel, P., Frost, G., Gupta, R., Hansen, Torben, Hattersley, A., Jablonka, B., Kaye, J., Laakso, M., McDonald, T. J., Pedersen, Oluf Borbye, Schwenk, J. M., Pavo, I., Mari, A., McCarthy, M. I., Ruetten, H., Walker, M., Pearson, E., Franks, P. W. & IMI-DIRECT consortium, I. C., 2019, In : Diabetologia. 62, 9, p. 1601-1615

    Research output: Contribution to journalJournal article

  102. Published

    Disruption of Ca2+i Homeostasis and Connexin 43 Hemichannel Function in the Right Ventricle Precedes Overt Arrhythmogenic Cardiomyopathy in Plakophilin-2-Deficient Mice

    Kim, J., Perez-Hernandez, M., Alvarado, F. J., Maurya, S. R., Montnach, J., Yin, Y., Zhang, M., Lin, X., Vasquez, C., Heguy, A., Liang, F., Woo, S., Morley, G. E., Rothenberg, E., Lundby, Alicia, Valdivia, H. H., Cerrone, M. & Delmar, M., 2019, In : Circulation. 140, 12, p. 1015-1030

    Research output: Contribution to journalJournal article

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