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Items: 30

1.

Quantitative metaproteomics of medieval dental calculus reveals individual oral health status.

Jersie-Christensen RR, Lanigan LT, Lyon D, Mackie M, Belstrøm D, Kelstrup CD, Fotakis AK, Willerslev E, Lynnerup N, Jensen LJ, Cappellini E, Olsen JV.

Nat Commun. 2018 Nov 20;9(1):4744. doi: 10.1038/s41467-018-07148-3.

2.

Limits for Resolving Isobaric Tandem Mass Tag Reporter Ions Using Phase-Constrained Spectrum Deconvolution.

Kelstrup CD, Aizikov K, Batth TS, Kreutzman A, Grinfeld D, Lange O, Mourad D, Makarov AA, Olsen JV.

J Proteome Res. 2018 Nov 2;17(11):4008-4016. doi: 10.1021/acs.jproteome.8b00381. Epub 2018 Sep 28.

3.

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

Akimov V, Barrio-Hernandez I, Hansen SVF, Hallenborg P, Pedersen AK, Bekker-Jensen DB, Puglia M, Christensen SDK, Vanselow JT, Nielsen MM, Kratchmarova I, Kelstrup CD, Olsen JV, Blagoev B.

Nat Struct Mol Biol. 2018 Jul;25(7):631-640. doi: 10.1038/s41594-018-0084-y. Epub 2018 Jul 2.

PMID:
29967540
4.

Generic Workflow for Mapping of Complex Disulfide Bonds Using In-Source Reduction and Extracted Ion Chromatograms from Data-Dependent Mass Spectrometry.

Cramer CN, Kelstrup CD, Olsen JV, Haselmann KF, Nielsen PK.

Anal Chem. 2018 Jul 3;90(13):8202-8210. doi: 10.1021/acs.analchem.8b01603. Epub 2018 Jun 22.

PMID:
29878755
5.

Benchmarking common quantification strategies for large-scale phosphoproteomics.

Hogrebe A, von Stechow L, Bekker-Jensen DB, Weinert BT, Kelstrup CD, Olsen JV.

Nat Commun. 2018 Mar 13;9(1):1045. doi: 10.1038/s41467-018-03309-6.

6.

Performance Evaluation of the Q Exactive HF-X for Shotgun Proteomics.

Kelstrup CD, Bekker-Jensen DB, Arrey TN, Hogrebe A, Harder A, Olsen JV.

J Proteome Res. 2018 Jan 5;17(1):727-738. doi: 10.1021/acs.jproteome.7b00602. Epub 2017 Dec 20.

PMID:
29183128
7.

An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes.

Bekker-Jensen DB, Kelstrup CD, Batth TS, Larsen SC, Haldrup C, Bramsen JB, Sørensen KD, Høyer S, Ørntoft TF, Andersen CL, Nielsen ML, Olsen JV.

Cell Syst. 2017 Jun 28;4(6):587-599.e4. doi: 10.1016/j.cels.2017.05.009. Epub 2017 Jun 7.

8.

Complete Mapping of Complex Disulfide Patterns with Closely-Spaced Cysteines by In-Source Reduction and Data-Dependent Mass Spectrometry.

Cramer CN, Kelstrup CD, Olsen JV, Haselmann KF, Nielsen PK.

Anal Chem. 2017 Jun 6;89(11):5949-5957. doi: 10.1021/acs.analchem.7b00424. Epub 2017 May 9.

PMID:
28453249
9.

Analytic framework for peptidomics applied to large-scale neuropeptide identification.

Secher A, Kelstrup CD, Conde-Frieboes KW, Pyke C, Raun K, Wulff BS, Olsen JV.

Nat Commun. 2016 May 4;7:11436. doi: 10.1038/ncomms11436.

10.

Ancient proteins resolve the evolutionary history of Darwin's South American ungulates.

Welker F, Collins MJ, Thomas JA, Wadsley M, Brace S, Cappellini E, Turvey ST, Reguero M, Gelfo JN, Kramarz A, Burger J, Thomas-Oates J, Ashford DA, Ashton PD, Rowsell K, Porter DM, Kessler B, Fischer R, Baessmann C, Kaspar S, Olsen JV, Kiley P, Elliott JA, Kelstrup CD, Mullin V, Hofreiter M, Willerslev E, Hublin JJ, Orlando L, Barnes I, MacPhee RD.

Nature. 2015 Jun 4;522(7554):81-4. doi: 10.1038/nature14249. Epub 2015 Mar 18.

11.

Rapid and deep proteomes by faster sequencing on a benchtop quadrupole ultra-high-field Orbitrap mass spectrometer.

Kelstrup CD, Jersie-Christensen RR, Batth TS, Arrey TN, Kuehn A, Kellmann M, Olsen JV.

J Proteome Res. 2014 Dec 5;13(12):6187-95. doi: 10.1021/pr500985w. Epub 2014 Nov 10.

PMID:
25349961
12.

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

Brandt LØ, Schmidt AL, Mannering U, Sarret M, Kelstrup CD, Olsen JV, Cappellini E.

PLoS One. 2014 Sep 26;9(9):e106875. doi: 10.1371/journal.pone.0106875. eCollection 2014.

13.

Comprehensive identification of SUMO2/3 targets and their dynamics during mitosis.

Schou J, Kelstrup CD, Hayward DG, Olsen JV, Nilsson J.

PLoS One. 2014 Jun 27;9(6):e100692. doi: 10.1371/journal.pone.0100692. eCollection 2014.

14.

Analytical utility of mass spectral binning in proteomic experiments by SPectral Immonium Ion Detection (SPIID).

Kelstrup CD, Frese C, Heck AJ, Olsen JV, Nielsen ML.

Mol Cell Proteomics. 2014 Aug;13(8):1914-24. doi: 10.1074/mcp.O113.035915. Epub 2014 Jun 3.

15.

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

Walzer M, Pernas LE, Nasso S, Bittremieux W, Nahnsen S, Kelchtermans P, Pichler P, van den Toorn HW, Staes A, Vandenbussche J, Mazanek M, Taus T, Scheltema RA, Kelstrup CD, Gatto L, van Breukelen B, Aiche S, Valkenborg D, Laukens K, Lilley KS, Olsen JV, Heck AJ, Mechtler K, Aebersold R, Gevaert K, Vizcaíno JA, Hermjakob H, Kohlbacher O, Martens L.

Mol Cell Proteomics. 2014 Aug;13(8):1905-13. doi: 10.1074/mcp.M113.035907. Epub 2014 Apr 23.

16.

Uncovering SUMOylation dynamics during cell-cycle progression reveals FoxM1 as a key mitotic SUMO target protein.

Schimmel J, Eifler K, Sigurðsson JO, Cuijpers SA, Hendriks IA, Verlaan-de Vries M, Kelstrup CD, Francavilla C, Medema RH, Olsen JV, Vertegaal AC.

Mol Cell. 2014 Mar 20;53(6):1053-66. doi: 10.1016/j.molcel.2014.02.001. Epub 2014 Feb 27.

17.

Pathogens and host immunity in the ancient human oral cavity.

Warinner C, Rodrigues JF, Vyas R, Trachsel C, Shved N, Grossmann J, Radini A, Hancock Y, Tito RY, Fiddyment S, Speller C, Hendy J, Charlton S, Luder HU, Salazar-García DC, Eppler E, Seiler R, Hansen LH, Castruita JA, Barkow-Oesterreicher S, Teoh KY, Kelstrup CD, Olsen JV, Nanni P, Kawai T, Willerslev E, von Mering C, Lewis CM Jr, Collins MJ, Gilbert MT, Rühli F, Cappellini E.

Nat Genet. 2014 Apr;46(4):336-44. doi: 10.1038/ng.2906. Epub 2014 Feb 23.

18.

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

Orlando L, Ginolhac A, Zhang G, Froese D, Albrechtsen A, Stiller M, Schubert M, Cappellini E, Petersen B, Moltke I, Johnson PL, Fumagalli M, Vilstrup JT, Raghavan M, Korneliussen T, Malaspinas AS, Vogt J, Szklarczyk D, Kelstrup CD, Vinther J, Dolocan A, Stenderup J, Velazquez AM, Cahill J, Rasmussen M, Wang X, Min J, Zazula GD, Seguin-Orlando A, Mortensen C, Magnussen K, Thompson JF, Weinstock J, Gregersen K, Røed KH, Eisenmann V, Rubin CJ, Miller DC, Antczak DF, Bertelsen MF, Brunak S, Al-Rasheid KA, Ryder O, Andersson L, Mundy J, Krogh A, Gilbert MT, Kjær K, Sicheritz-Ponten T, Jensen LJ, Olsen JV, Hofreiter M, Nielsen R, Shapiro B, Wang J, Willerslev E.

Nature. 2013 Jul 4;499(7456):74-8. doi: 10.1038/nature12323. Epub 2013 Jun 26.

PMID:
23803765
19.

In vivo phosphoproteomics analysis reveals the cardiac targets of β-adrenergic receptor signaling.

Lundby A, Andersen MN, Steffensen AB, Horn H, Kelstrup CD, Francavilla C, Jensen LJ, Schmitt N, Thomsen MB, Olsen JV.

Sci Signal. 2013 Jun 4;6(278):rs11. doi: 10.1126/scisignal.2003506.

PMID:
23737553
20.

A map of general and specialized chromatin readers in mouse tissues generated by label-free interaction proteomics.

Eberl HC, Spruijt CG, Kelstrup CD, Vermeulen M, Mann M.

Mol Cell. 2013 Jan 24;49(2):368-78. doi: 10.1016/j.molcel.2012.10.026. Epub 2012 Nov 29.

21.

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

Lundby A, Lage K, Weinert BT, Bekker-Jensen DB, Secher A, Skovgaard T, Kelstrup CD, Dmytriyev A, Choudhary C, Lundby C, Olsen JV.

Cell Rep. 2012 Aug 30;2(2):419-31. doi: 10.1016/j.celrep.2012.07.006. Epub 2012 Aug 16.

22.

Proteomic analyses reveal divergent ubiquitylation site patterns in murine tissues.

Wagner SA, Beli P, Weinert BT, Schölz C, Kelstrup CD, Young C, Nielsen ML, Olsen JV, Brakebusch C, Choudhary C.

Mol Cell Proteomics. 2012 Dec;11(12):1578-85. doi: 10.1074/mcp.M112.017905. Epub 2012 Jul 11.

23.

Comprehensive profiling of proteome changes upon sequential deletion of deubiquitylating enzymes.

Poulsen JW, Madsen CT, Young C, Kelstrup CD, Grell HC, Henriksen P, Juhl-Jensen L, Nielsen ML.

J Proteomics. 2012 Jul 16;75(13):3886-97. doi: 10.1016/j.jprot.2012.04.055. Epub 2012 May 24.

PMID:
22634085
24.

Optimized fast and sensitive acquisition methods for shotgun proteomics on a quadrupole orbitrap mass spectrometer.

Kelstrup CD, Young C, Lavallee R, Nielsen ML, Olsen JV.

J Proteome Res. 2012 Jun 1;11(6):3487-97. doi: 10.1021/pr3000249. Epub 2012 May 10.

PMID:
22537090
25.

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

Zhang G, Kelstrup CD, Hu XW, Kaas Hansen MJ, Singleton MR, Olsen JV, Nilsson J.

J Cell Sci. 2012 Jul 1;125(Pt 13):3243-53. doi: 10.1242/jcs.104208. Epub 2012 Mar 27.

26.

Global phosphoproteome profiling reveals unanticipated networks responsive to cisplatin treatment of embryonic stem cells.

Pines A, Kelstrup CD, Vrouwe MG, Puigvert JC, Typas D, Misovic B, de Groot A, von Stechow L, van de Water B, Danen EH, Vrieling H, Mullenders LH, Olsen JV.

Mol Cell Biol. 2011 Dec;31(24):4964-77. doi: 10.1128/MCB.05258-11. Epub 2011 Oct 17.

27.

Pinpointing phosphorylation sites: Quantitative filtering and a novel site-specific x-ion fragment.

Kelstrup CD, Hekmat O, Francavilla C, Olsen JV.

J Proteome Res. 2011 Jul 1;10(7):2937-48. doi: 10.1021/pr200154t. Epub 2011 Apr 28.

PMID:
21526838
28.

Quantitative phosphoproteomics dissection of seven-transmembrane receptor signaling using full and biased agonists.

Christensen GL, Kelstrup CD, Lyngsø C, Sarwar U, Bøgebo R, Sheikh SP, Gammeltoft S, Olsen JV, Hansen JL.

Mol Cell Proteomics. 2010 Jul;9(7):1540-53. doi: 10.1074/mcp.M900550-MCP200. Epub 2010 Apr 2.

29.

Global analysis of the yeast osmotic stress response by quantitative proteomics.

Soufi B, Kelstrup CD, Stoehr G, Fröhlich F, Walther TC, Olsen JV.

Mol Biosyst. 2009 Nov;5(11):1337-46. doi: 10.1039/b902256b. Epub 2009 Sep 10.

PMID:
19823750
30.

Unravelling in vitro variables of major importance for the outcome of mass spectrometry-based serum proteomics.

West-Nørager M, Kelstrup CD, Schou C, Høgdall EV, Høgdall CK, Heegaard NH.

J Chromatogr B Analyt Technol Biomed Life Sci. 2007 Feb 15;847(1):30-7. Epub 2006 Nov 16.

PMID:
17112795

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