Michael Lund Nielsen

Michael Lund Nielsen

professor, group leader


  1. 2000
  2. Intramolecular hydrogen atom transfer in hydrogen-deficient polypeptide radical cations

    Nielsen, Michael Lund, Budnik, B. A., Haselmann, K. F., Olsen, Jesper Velgaard & Zubarev, R. A., 2000, In : Chemical Physics Letters. 330, 5-6, p. 558-562 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  3. Tandem ionization mass spectrometry of biomolecules

    Zubarev, R. A., Nielsen, Michael Lund & Budnik, B. A., 2000, In : European Journal of Mass Spectrometry. 6, 3, p. 235-240 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  4. 2001
  5. Advantages of external accumulation for electron capture dissociation in Fourier transform mass spectrometry

    Haselmann, K. F., Budnik, B. A., Olsen, Jesper Velgaard, Nielsen, Michael Lund, Reis, C. A., Clausen, H., Johnsen, A. H. & Zubarev, R. A., 2001, In : Analytical Chemistry. 73, 13, p. 2998-3005 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  6. Comparison of electron capture dissociation and collisionally activated dissociation of polycations of peptide nucleic acids

    Olsen, Jesper Velgaard, Haselmann, K. F., Nielsen, Michael Lund, Budnik, B. A., Nielsen, P. E. & Zubarev, R. A., 2001, In : Rapid Communications in Mass Spectrometry. 15, 12, p. 969-74 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  7. 2002
  8. Can relative cleavage frequencies in peptides provide additional sequence information?

    Budnik, B. A., Nielsen, Michael Lund, Olsen, Jesper Velgaard, Haselmann, K. F., Horth, P., Haehnel, W. & Zubarev, R. A., 2002, In : International Journal of Mass Spectrometry. 219, 1, p. 283-294 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  9. Electronic excitation gives informative fragmentation of polypeptide cations and anions

    Haselmann, K. F., Budnik, B. A., Kjeldsen, F., Nielsen, Michael Lund, Olsen, Jesper Velgaard & Zubarev, R. A., 2002, In : European Journal of Mass Spectrometry. 8, 2, p. 117-121 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  10. Peptide end sequencing by orthogonal MALDI tandem mass spectrometry

    Nielsen, Michael Lund, Bennett, K. L., Larsen, B., Moniatte, M. & Mann, M., 2002, In : Journal of Proteome Research. 1, 1, p. 63-71 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  11. 2003
  12. Experiences and perspectives of MALDI MS and MS/MS in proteomic research

    Rappsilber, J., Moniatte, M., Nielsen, Michael Lund, Podtelejnikov, A. V. & Mann, M., 2003, In : International Journal of Mass Spectrometry. 226, 1, p. 223-237 15 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  13. Tandem MALDI/El ionization for tandem Fourier transform ion cyclotron resonance mass spectrometry of polypeptides

    Nielsen, Michael Lund, Budnik, B. A., Haselmann, K. F. & Zubarev, R. A., 2003, In : International Journal of Mass Spectrometry. 226, 1, p. 181-187 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  14. 2004
  15. Physicochemical properties determining the detection probability of tryptic peptides in Fourier transform mass spectrometry. A correlation study

    Nielsen, Michael Lund, Savitski, M. M., Kjeldsen, F. & Zubarev, R. A., 2004, In : Analytical Chemistry. 76, 19, p. 5872-5877 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  16. Shifted-basis technique improves accuracy of peak position determination in Fourier transform mass spectrometry

    Savitski, M. M., Ivonin, I. A., Nielsen, Michael Lund, Zubarev, R. A., Tsybin, Y. O. & Hakansson, P., 2004, In : Journal of The American Society for Mass Spectrometry. 15, 4, p. 457-461 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  17. HysTag--a novel proteomic quantification tool applied to differential display analysis of membrane proteins from distinct areas of mouse brain

    Olsen, Jesper Velgaard, Andersen, J. R., Nielsen, P. A., Nielsen, Michael Lund, Figeys, D., Mann, Matthias & Wisniewski, J. R., Jan 2004, In : Molecular and Cellular Proteomics. 3, 1, p. 82-92 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  18. 2005
  19. Improving protein identification using complementary fragmentation techniques in Fourier transform mass spectrometry

    Nielsen, Michael Lund, Savitski, M. M. & Zubarev, R. A., 2005, In : Molecular and Cellular Proteomics. 4, 6, p. 835-845 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  20. New data base-independent, sequence tag-based scoring of peptide MS/MS data validates Mowse scores, recovers below threshold data, singles out modified peptides, and assesses the quality of MS/MS techniques

    Savitski, M. M., Nielsen, Michael Lund & Zubarev, R. A., 2005, In : Molecular and Cellular Proteomics. 4, 8, p. 1180-1188 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  21. Proteomics-grade de novo sequencing approach

    Savitski, M. M., Nielsen, Michael Lund, Kjeldsen, F. & Zubarev, R. A., 2005, In : Journal of Proteome Research. 4, 6, p. 2348-2354 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  22. Toward error-free proteomics

    Zubarev, R., Nielsen, Michael Lund, Savitski, M. & Kocher, T., 2005, In : Molecular and Cellular Proteomics. 4, 8, p. S16-S16

    Research output: Contribution to journalJournal articleResearchpeer-review

  23. 2006
  24. Complementary sequence preferences of electron-capture dissociation and vibrational excitation in fragmentation of polypeptide polycations

    Savitski, M. M., Kjeldsen, F., Nielsen, Michael Lund & Zubarev, R. A., 2006, In : Angewandte Chemie International Edition. 45, 32, p. 5301-5303 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  25. Extent of modifications in human proteome samples and their effect on dynamic range of analysis in shotgun proteomics

    Nielsen, Michael Lund, Savitski, M. M. & Zubarev, R. A., 2006, In : Molecular and Cellular Proteomics. 5, 12, p. 2384-2391 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  26. Liquid chromatography at critical conditions: Comprehensive approach to sequence-dependent retention time prediction

    Gorshkov, A. V., Tarasova, I. A., Evreinov, V. V., Savitski, M. M., Nielsen, Michael Lund, Zubarev, R. A. & Gorshkov, M. V., 2006, In : Analytical Chemistry. 78, 22, p. 7770-7777 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  27. ModifiComb, a new proteomic tool for mapping substoichiometric post-translational modifications, finding novel types of modifications, and fingerprinting complex protein mixtures

    Savitski, M. M., Nielsen, Michael Lund & Zubarev, R. A., 2006, In : Molecular and Cellular Proteomics. 5, 5, p. 935-948 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  28. PhosTShunter: A fast and reliable tool to detect phosphorylated peptides in liquid chromatography Fourier transform tandem mass spectrometry data sets

    Kocher, T., Savitski, M. M., Nielsen, Michael Lund & Zubarev, R. A., 2006, In : Journal of Proteome Research. 5, 3, p. 659-668 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  29. 2007
  30. Backbone carbonyl group basicities are related to gas-phase fragmentation of peptides and protein folding

    Savitski, M. M., Kjeldsen, F., Nielsen, Michael Lund, Garbuzynskiy, S. O., Galzitskaya, O. V., Surin, A. K. & Zubarev, R. A., 2007, In : Angewandte Chemie International Edition. 46, 9, p. 1481-1484 4 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  31. De novo peptide sequencing and identification with precision mass spectrometry

    Frank, A. M., Savitski, M. M., Nielsen, Michael Lund, Zubarev, R. A. & Pevzner, P. A., 2007, In : Journal of Proteome Research. 6, 1, p. 114-123 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  32. Electrospray ionization tandem mass spectrometry sequencing of novel skin peptides from Ranid frogs containing disulfide bridges

    Samgina, T., Arternenko, K., Gorshkov, V., Lebedev, A., Nielsen, Michael Lund, Savitski, M. & Zubarev, R., 2007, In : European Journal of Mass Spectrometry. 13, 2, p. 155-163 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  33. Hydrogen rearrangement to and from radical z fragments in electron capture dissociation of peptides

    Savitski, M. M., Kjeldsen, F., Nielsen, Michael Lund & Zubarev, R. A., 2007, In : Journal of The American Society for Mass Spectrometry. 18, 1, p. 113-120 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  34. On studying protein phosphorylation patterns using bottom-up LC-MS/MS: the case of human alpha-casein

    Kjeldsen, F., Savitski, M. M., Nielsen, Michael Lund, Shi, L. & Zubarev, R. A., 2007, In : Analyst. 132, 8, p. 768-776 9 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  35. Relative specificities of water and ammonia losses from backbone fragments in collision-activated dissociation

    Savitski, M. M., Kjeldsen, F., Nielsen, Michael Lund & Zubarev, R. A., 2007, In : Journal of Proteome Research. 6, 7, p. 2669-2673 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  36. Side-chain losses in electron capture dissociation to improve peptide identification

    Savitski, M. M., Nielsen, Michael Lund & Zubarev, R. A., 2007, In : Analytical Chemistry. 79, 6, p. 2296-2302 7 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  37. SwedCAD, a database of annotated high-mass accuracy MS/MS spectra of tryptic peptides

    Falth, M., Savitski, M. M., Nielsen, Michael Lund, Kjeldsen, F., Andren, P. E. & Zubarev, R. A., 2007, In : Journal of Proteome Research. 6, 10, p. 4063-4067 5 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  38. The RBCC gene RFP2 (leu5) encodes a novel transmembrane E3 ubiquitin ligase involved in ERAD

    Lerner, M., Corcoran, M., Cepeda, D., Nielsen, Michael Lund, Zubarev, R., Ponten, F., Uhlen, M., Hober, S., Grander, D. & Sangfelt, O., 2007, In : Molecular Biology of the Cell. 18, 5, p. 1670-1682 13 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  39. 2008
  40. Analytical Utility of Small Neutral Losses from Reduced Species in Electron Capture Dissociation Studied Using SwedECD Database

    Falth, M., Savitski, M. M., Nielsen, Michael Lund, Kjeldsen, F., Andren, P. E. & Zubarev, R. A., 2008, In : Analytical Chemistry. 80, 21, p. 8089-8094 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  41. Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast

    de Godoy, L. M. F., Olsen, J. V., Cox, J., Nielsen, Michael Lund, Hubner, N. C., Fröhlich, F., Walther, T. C. & Mann, M., 2008, In : Nature. 455, 7217, p. 1251-4 3 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  42. Identification of dominant signaling pathways from proteomics expression data

    Zubarev, R. A., Nielsen, Michael Lund, Fung, E. M., Savitski, M. M., Kel-Margoulis, O., Wingender, E. & Kel, A., 2008, In : Journal of Proteomics. 71, 1, p. 89-96 8 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  43. Immunoaffinity enrichments followed by mass spectrometric detection for studying global protein tyrosine phosphorylation

    Lind, S. B., Molin, M., Savitski, M. M., Emilsson, L., Astrom, J., Hedberg, L., Adams, C., Nielsen, Michael Lund, Engstrom, A., Elfineh, L., Andersson, E., Zubarev, R. A. & Pettersson, U., 2008, In : Journal of Proteome Research. 7, 7, p. 2897-2910 14 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  44. Iodoacetamide-induced artifact mimics ubiquitination in mass spectrometry

    Nielsen, Michael Lund, Vermeulen, M., Bonaldi, T., Cox, J., Moroder, L. & Mann, M., 2008, In : Nature Methods. 5, 6, p. 459-460 2 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  45. 2009
  46. A dual pressure linear ion trap orbitrap instrument with very high sequencing speed

    Olsen, Jesper Velgaard, Schwartz, J. C., Griep-Raming, J., Nielsen, Michael Lund, Damoc, E., Denisov, E., Lange, O., Remes, P., Taylor, D., Splendore, M., Wouters, E. R., Senko, M., Makarov, A., Mann, Matthias & Horning, S., 2009, In : Molecular and Cellular Proteomics. 8, 12, p. 2759-69 10 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  47. Analysis of in vivo histone methylation kinetics by Heavy Methyl SILAC

    Bonaldi, T., Vitale, E., Nielsen, Michael Lund, Cox, J. & Mann, M., 2009, In : Amino Acids. 37, p. 66 1 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  48. Jmjd6 Catalyses Lysyl-Hydroxylation of U2AF65, a Protein Associated with RNA Splicing

    Webby, C. J., Wolf, A., Gromak, N., Dreger, M., Kramer, H., Kessler, B., Nielsen, Michael Lund, Schmitz, C., Butler, D. S., Yates, J. R., Delahunty, C. M., Hahn, P., Lengeling, A., Mann, M., Proudfoot, N. J., Schofield, C. J. & Boettger, A., 2009, In : Science. 325, 5936, p. 90-93 4 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  49. Published

    Lysine acetylation targets protein complexes and co-regulates major cellular functions

    Choudhary, Chuna Ram, Kumar, C., Gnad, F., Nielsen, Michael Lund, Rehman, M., Walther, T. C., Olsen, Jesper Velgaard & Mann, Matthias, 2009, In : Science. 325, 5942, p. 834-40 6 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  50. 2011
  51. ATP Enhances Neuronal Differentiation of PC12 Cells by Activating PKC alpha Interactions with Cytoskeletal Proteins

    Marin-Vicente, C., Guerrero-Valero, M., Nielsen, Michael Lund, Savitski, M. M., Gomez-Fernandez, J. C., Zubarev, R. A. & Corbalan-Garcia, S., 2011, In : Journal of Proteome Research. 10, 2, p. 529-540 12 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  52. 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

  53. Published

    Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level

    Danielsen, J. M. R., Sylvestersen, K. B., Bekker-Jensen, Simon Holst, Szklarczyk, D., Poulsen, J. W., Horn, H., Jensen, Lars Juhl, Mailand, Niels & Nielsen, Michael Lund, 1 Mar 2011, In : Molecular and Cellular Proteomics. 10, 3, p. M110.003590

    Research output: Contribution to journalJournal articleResearchpeer-review

  54. Published

    A Proteome-wide, Quantitative Survey of In Vivo Ubiquitylation Sites Reveals Widespread Regulatory Roles

    Wagner, S. A., Beli, P., Weinert, B. T., Nielsen, Michael Lund, Cox, J., Mann, Matthias & Choudhary, Chuna Ram, 1 Oct 2011, In : Molecular and Cellular Proteomics. 10, 10, p. M111.013284

    Research output: Contribution to journalJournal articleResearchpeer-review

  55. 2012
  56. Published

    Comprehensive profiling of proteome changes upon sequential deletion of deubiquitylating enzymes

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

    Research output: Contribution to journalJournal articleResearchpeer-review

  57. Published

    Optimized Fast and Sensitive Acquisition Methods for Shotgun Proteomics on a Quadrupole Orbitrap Mass Spectrometer

    Kelstrup, C. D., Young, C., Lavallee, R., Nielsen, Michael Lund & Olsen, Jesper Velgaard, 2012, In : Journal of Proteome Research. p. 3487-3497 11 p.

    Research output: Contribution to journalJournal articleResearchpeer-review

  58. Published

    Pdx1 is post-translationally modified in vivo and serine 61 is the principal site of phosphorylation

    Frogne, T., Sylvestersen, K. B., Kubicek, S., Nielsen, Michael Lund & Hecksher-Sørensen, J., 2012, In : P L o S One. 7, 4, p. e35233

    Research output: Contribution to journalJournal articleResearchpeer-review

  59. 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

  60. 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

  61. 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

  62. 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

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