Curriculum Vitae

July 2009

Jesper Velgaard Olsen, Professor MSO, PhD

Born: September 15th, 1973

Civil status:
Married to cand.merc. Tine Klitmøller. Two daughters; Frederikke (b2000) & Nikoline (b2005). 

Professional address:
Department of Proteomics, Novo Nordisk Foundation Center for Protein Research, Faculty of Health Sciences, University of Copenhagen, Blegdamsvej 3b, DK-2200 Copenhagen N, Denmark.  Tel: +45-3532-5022, Fax: +45-3532-5001, Email: jesper.olsen@cpr.ku.dk, www: www.cpr.ku.dk/groups/proteomics.  

Degrees:
2001: M.Sc. in Chemistry (supervisor Roman Zubarev), Department of Chemistry, University of Southern Denmark, Denmark. 2006: Ph.D. in Molecular Biology (supervisor Matthias Mann), Department of Biochemistry and Molecular Biology, University of Southern Denmark.

Professional Experience:
2001-2003: Staff scientist at MDS Proteomics a/s in Odense.

2006-present: Postdoctoral fellow at Max Planck Institute for Biochemistry, Martinsried, Germany.

2007-present:  Scientific advisor for Kinaxo Biotechnologies GmbH, Martinsried, Germany.

2008-present: Scientific advisory board member Core Facilities for Proteomics and Glycomics

under the Taiwan National Research Program in Genomic Medicine (NRPGM), Taipei, Taiwan.

2009: Group Leader and Research Professor of quantitative mass spectrometry at the Novo Nordisk Foundation Center for Protein Research, Faculty of Health, University of Copenhagen, Denmark.

Honors and Awards:
2007: Max Planck Institute for Biochemistry Junior Research Award.

2007: Honorary professor in Mass Spectrometry for quantitative proteomics at Novo Nordisk Foundation Center for Protein Research.

2008: HUPO Young Investigator Award, 7^th HUPO World Congress in Amsterdam.

Publications:
Published more than 50 peer-reviewed papers, which according to the Institute of Scientific Information (ISI) have already been cited more than 2,000 times, with a strongly increasing tendency. Seven papers with more than 100 citations each. Current h-index is 23.

Most recent high-impact publications:
"Global, in vivo, and site-specific phosphorylation dynamics in signaling networks"
by Olsen JV, Blagoev B, Gnad F, Macek B, Kumar C, Mortensen P, Mann M.
Cell. 2006;127(3):635-48.

"Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast." 
by de Godoy LM, Olsen JV et al,
Nature. 2008 Oct 30;455(7217):1251-4.

Publication List:
In reversed chronological order (latest first). 

51
Choudhary C, Kumar C, Gnad F, Nielsen ML, Rehman M, Walther T, Olsen JV, Mann M.Lysine Acetylation Targets Protein Complexes and Co-Regulates Major Cellular Functions.Science. 2009 Jul 16. 

50
Gnad F, de Godoy LM, Cox J, Neuhauser N, Ren S, Olsen JV, Mann M.High accuracy identification and bioinformatic analysis of in-vivo protein phosphorylation sites in yeastProteomics. 2009 accepted. 

49
Oppermann FS, Gnad F, Olsen JV, Hornberger R, Greff Z, Kéri G, Mann M, Daub H. Large-scale proteomics analysis of the human kinome Mol Cell Proteomics. 2009. Epub 2009 Apr 15. 

48
Hurd PJ, Bannister AJ, Halls K, Dawson MA, Vermeulen M, Olsen JV, Ismail H, Somers J, Mann M, Owen-Hughes T, Gout I, Kouzarides T.Phosphorylation of histone H3 Thr45 is linked to apoptosis.J Biol Chem. 2009 Apr 10. 

47
Cox J, Matic I, Hilger M, Nagaraj N, Selbach M, Olsen JV, Mann M.A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics.Nat Protoc. 2009; AOP. 

46
Olsen JV, Macek B.High Accuracy Mass Spectrometry in Large-Scale Analysis of Protein Phosphorylation.In Mass Spectrometry of Proteins and Peptides.Methods Mol Biol. 2009;492:131-42. 

45
Macek B, Mann M, Olsen JV.Global and Site-Specific Quantitative Phosphoproteomics: Principles and Applications.Annu Rev Pharmacol Toxicol. 2009; 49:199-221. Review. 

44
de Godoy LM*, Olsen JV*, Cox J*, Nielsen ML*, Hubner NC, Fröhlich F, Walther TC, Mann M.Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast.Nature. 2008 Oct 30;455(7217):1251-4. * = Shared first author 

43
Daub H*, Olsen JV*, Bairlein M*, Gnad F, Oppermann FS, Koerner R, Greff Z, Keri G, Stemmann O, Mann M.
Kinase-selective Enrichment Enables Quantitative Phosphoproteomics of the Kinome across the Cell Cycle.
Mol Cell. 2008 Aug 8;31(3):438-48.
* = Shared first author 

42
Mann K, Olsen JV, Macek B, Gnad F, Mann MIdentification of new chicken egg proteins by mass spectrometry-based proteomic analysis.WORLDS POULTRY SCIENCE JOURNAL. 2008 Jun;64(2):209-18. 

41
Pan C, Gnad F, Olsen JV, Mann MQuantitative phosphoproteome analysis of a mouse liver cell line reveals specificity of phosphatase inhibitors.Proteomics. 2008 Nov;8(21):4534-46. 

40
Yan J, Olsen JV, Park KS, Li W, Bildl W, Schulte U, Aldrich RW, Fakler B, Trimmer JS.Profiling the phospho-status of the BKca channel a subunit in rat brain reveals unexpected patterns and complexity.Mol Cell Proteomics. 2008 accepted. 

39
Mertins P, Eberl HC, Renkawitz J, Olsen JV, Tremblay ML, Mann M, Ullrich A, Daub H.Investigation of protein tyrosine phosphatase 1B function by quantitative proteomics.Mol Cell Proteomics. 2008 Sep;7(9):1763-77. 

38
Bandeira N, Olsen JV, Mann M, Pevzner P.
Multi-spectra peptide sequencing and its applications to multistage mass spectrometry.
Bioinformatics. 2008 Jul 1;24(13):i416-23.

37
Knipscheer P, Flotho A, Klug H, Olsen JV, van Dijk WJ; Fish A, Johnson ES, Mann M, Sixma TK, Pichler A.
Ubc9 sumoylation regulates SUMO target discrimination.
Mol Cell. 2008 Aug 8;31(3):371-82.

36
Macek B, Gnad F, Soufi B, Kumar C, Olsen JV, Mijakovic I, Mann M.
Phosphoproteome analysis of E. coli reveals evolutionary conservation of bacterial Ser/Thr/Tyr phosphorylation.
Mol Cell Proteomics. 2008 Feb;7(2):299-307.  

35
Gnad F, Ren S,Cox J, Olsen JV, Macek B, Oroshi M, Mann M.
PHOSIDA (phosphorylation site database): management, structural and evolutionary investigation, and prediction of phosphosites.
Genome Biol. 2007;8(8):R250. 

34
Lu A, Waanders LF, Almeida R, Li G, Allen M, Cox J, Olsen JV, Bonaldi T, Mann M. Nanoelectrospray peptide mapping revisited: Composite survey spectra allow high dynamic range protein characterization without LCMS on an orbitrap mass spectrometer
Int J Mass Spectrom. 2007 Dec;268(2-3):158-167. 

33
Olsen JV, Macek B, Lange O, Makarov A, Horning S, Mann M.
Higher-Energy C-trap Dissociation (HCD) for precise peptide modification analysis.
Nat Methods. 2007 Sep;4(9):709-12. 

32
Notenboom V, Hibbert R, van Rossum-Fikkert S, Olsen JV, Mann M, Sixma TK.
Functional characterization of Rad18 domains for Rad6, ubiquitin DNA binding and PCNA modification.
Nucleic Acid Res. 2007;35(17):5819-30.

31
Schandorff S, Olsen JV, Bunkenborg J, Blagoev B, Zhang Y, Andersen JS, Mann M.
A mass spectrometry-friendly database for cSNP identification.
Nat Methods. 2007 Jun;4(6):465-6.  

30
Knipscheer P, van Dijk WJ, Olsen JV, Mann M, Sixma TK.
Noncovalent interaction between Ubc9 and SUMO promotes SUMO chain formation.
EMBO J. 2007 Jun 6;26(11):2797-807.

29
Dengjel J, Akimov V, Olsen JV, Bunkenborg J, Mann M, Blagoev B, Andersen JS.
Quantitative proteomic assessment of very early cellular signaling events.
Nat Biotechnol. 2007 May;25(5):566-8.  

28
Klein C, Aivaliotis M, Olsen JV, Falb M, Besir H, Scheffer B, Bisle B, Tebbe A, Konstantinidis K, Siedler F, Pfeiffer F, Mann M, Oesterhelt D.
The low molecular weight proteome of Halobacterium salinarum.
J Proteome Res. 2007 Apr;6(4):1510-8.

27
Macek B, Mijakovic I, Olsen JV, Gnad F, Kumar C, Jensen PR, Mann M.
The serine/threonine/tyrosine phosphoproteome of the model bacterium Bacillus subtilis.
Mol Cell Proteomics. 2007 Apr;6(4):697-707.  

26
Olsen JV, Nielsen PA, Andersen JR, Mann M, Wisniewski JR.
Quantitative proteomic profiling of membrane proteins from the mouse brain cortex, hippocampus, and cerebellum using the HysTag reagent: mapping of neurotransmitter receptors and ion channels.
Brain Res. 2007 Feb 23;1134(1):95-106.

25
Mann K, Olsen JV, Macek B, Gnad F, Mann M.
Phosphoproteins of the chicken eggshell calcified layer.
Proteomics. 2007 Jan;7(1):106-15.  

24
Zhang Y, Zhang Y, Adachi J, Olsen JV, Shi R, de Souza G, Pasini E, Foster LJ, Macek B, Zougman A, Kumar C, Wisniewski JR, Jun W, Mann M.
MAPU: Max-Planck Unified database of organellar, cellular, tissue and body fluid proteomes.
Nucleic Acids Res. 2007 Jan;35(Database issue):D771-9.

23
Shevchenko A, Tomas H, Havlis J, Olsen JV, Mann M.
In-gel digestion for mass spectrometric characterization of proteins and proteomes.
Nat Protoc. 2006;1(6):2856-60.  

22
Olsen JV, Blagoev B, Gnad F, Macek B, Kumar C, Mortensen P, Mann M.
Global, in vivo, and site-specific phosphorylation dynamics in signaling networks.
Cell. 2006 Nov 3;127(3):635-48.

21
Adachi J, Kumar C, Zhang Y, Olsen JV, Mann M.
The human urinary proteome contains more than 1500 proteins, including a large proportion of membrane proteins.
Genome Biol. 2006;7(9):R80.  

20
de Godoy LM, Olsen JV, de Souza GA, Li G, Mortensen P, Mann M.
Status of complete proteome analysis by mass spectrometry: SILAC labeled yeast as a model system.
Genome Biol. 2006;7(6):R50.

19
Mann K, Macek B, Olsen JV.
Proteomic analysis of the acid-soluble organic matrix of the chicken calcified eggshell layer.
Proteomics. 2006 Jul;6(13):3801-10.  

18
Macek B, Waanders LF, Olsen JV, Mann M.
Top-down protein sequencing and MS3 on a hybrid linear quadrupole ion trap-orbitrap mass spectrometer.
Mol Cell Proteomics. 2006 May;5(5):949-58.

17
Olsen JV, de Godoy LM, Li G, Macek B, Mortensen P, Pesch R, Makarov A, Lange O, Horning S, Mann M.
Parts per million mass accuracy on an Orbitrap mass spectrometer via lock mass injection into a C-trap.
Mol Cell Proteomics. 2005 Dec;4(12):2010-21.  

16
Nielsen PA, Olsen JV, Podtelejnikov AV, Andersen JR, Mann M, Wisniewski JR.
Proteomic mapping of brain plasma membrane proteins.
Mol Cell Proteomics. 2005 Apr;4(4):402-8.

15
Pichler A, Knipscheer P, Oberhofer E, van Dijk WJ, Korner R, Olsen JV, Jentsch S, Melchior F, Sixma TK.
SUMO modification of the ubiquitin-conjugating enzyme E2-25K.
Nat Struct Mol Biol. 2005 Mar;12(3):264-9.  

14
Gruhler A*, Olsen JV*, Mohammed S, Mortensen P, Faergeman NJ, Mann M, Jensen ON. Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.
Mol Cell Proteomics. 2005 Mar;4(3):310-27.
* = Shared first author

13
Hinsby AM*, Olsen JV*, Mann M.
Tyrosine phosphoproteomics of fibroblast growth factor signaling: a role for insulin receptor substrate-4.
J Biol Chem. 2004 Nov 5;279(45):46438-47.
* = Shared first author  

12
Olsen JV, Mann M.
Improved peptide identification in proteomics by two consecutive stages of mass spectrometric fragmentation.
Proc Natl Acad Sci U S A. 2004 Sep 14;101(37):13417-22.

11
Olsen JV, Ong SE, Mann M.
Trypsin cleaves exclusively C-terminal to arginine and lysine residues.
Mol Cell Proteomics. 2004 Jun;3(6):608-14.  

10
Budnik BA, Olsen JV, Egorov TA, Anisimova VE, Galkina TG, Musolyamov AK, Grishin EV, Zubarev RA.
De novo sequencing of antimicrobial peptides isolated from the venom glands of the wolf spider Lycosa singoriensis.
J Mass Spectrom. 2004 Feb;39(2):193-201.

9
Olsen JV, Andersen JR, Nielsen PA, Nielsen ML, Figeys D, Mann M, Wisniewski JR.
HysTag--a novel proteomic quantification tool applied to differential display analysis of membrane proteins from distinct areas of mouse brain.
Mol Cell Proteomics. 2004 Jan;3(1):82-92.  

8
Mootha VK, Bunkenborg J, Olsen JV, Hjerrild M, Wisniewski JR, Stahl E, Bolouri MS, Ray HN, Sihag S, Kamal M, Patterson N, Lander ES, Mann M.
Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria.
Cell. 2003 Nov 26;115(5):629-40.

7
Hinsby AM, Olsen JV, Bennett KL, Mann M.
Signaling initiated by overexpression of the fibroblast growth factor receptor-1 investigated by mass spectrometry.
Mol Cell Proteomics. 2003 Jan;2(1):29-36.  

6
Haselmann, KF; Budnik, BA; Kjeldsen, F; Nielsen, ML; Olsen, JV; Zubarev, RA.
Electronic excitation gives informative fragmentation of polypeptide cations and anions.
Eur J Mass Spectrom. 2002;8(2):117-121.

5
Budnik, BA; Nielsen, ML; Olsen, JV; Haselmann, KF; Horth, P; Haehnel, W; Zubarev, RA.
Can relative cleavage frequencies in peptides provide additional sequence information?.
Int J Mass Spectrom. 2002;219(1):283-294.  

4
Olsen JV, Haselmann KF, Nielsen ML, Budnik BA, Nielsen PE, Zubarev RA.
Comparison of electron capture dissociation and collisionally activated dissociation of polycations of peptide nucleic acids.
Rapid Commun Mass Spectrom. 2001;15(12):969-74.

3
Haselmann KF, Budnik BA, Olsen JV, Nielsen ML, Reis CA, Clausen H, Johnsen AH, Zubarev RA.
Advantages of external accumulation for electron capture dissociation in Fourier transform mass spectrometry.
Anal Chem. 2001 Jul 1;73(13):2998-3005.  

2
Nielsen ML, Budnik BA, Haselmann KF, Olsen JV, Zubarev RA.
Intramolecular hydrogen atom transfer in hydrogen-deficient polypeptide radical cations.
Chem Phys Letters 2000;330(5):558-562.

1
Stensballe A, Jensen ON, Olsen JV, Haselmann KF, Zubarev RA.
Electron capture dissociation of singly and multiply phosphorylated peptides.
Rapid Commun Mass Spectrom. 2000;14(19):1793-800.