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High-Resolution Differential Ion Mobility Separations/Orbitrap Mass Spectrometry without Buffer Gas Limitations.

Baird MA, Shliaha PV, Anderson GA, Moskovets E, Laiko V, Makarov AA, Jensen ON, Shvartsburg AA.

Anal Chem. 2019 May 21;91(10):6918-6925. doi: 10.1021/acs.analchem.9b01309. Epub 2019 May 9.


Relationship of Sanitizers, Disinfectants, and Cleaning Agents with Antimicrobial Resistance.

Donaghy JA, Jagadeesan B, Goodburn K, Grunwald L, Jensen ON, Jespers AD, Kanagachandran K, Lafforgue H, Seefelder W, Quentin MC.

J Food Prot. 2019 May;82(5):889-902. doi: 10.4315/0362-028X.JFP-18-373.


Differential Ion Mobility Separations/Mass Spectrometry with High Resolution in Both Dimensions.

Baird MA, Anderson GA, Shliaha PV, Jensen ON, Shvartsburg AA.

Anal Chem. 2019 Jan 15;91(2):1479-1485. doi: 10.1021/acs.analchem.8b04518. Epub 2018 Dec 27.


FlashPack: Fast and Simple Preparation of Ultrahigh-performance Capillary Columns for LC-MS.

Kovalchuk SI, Jensen ON, Rogowska-Wrzesinska A.

Mol Cell Proteomics. 2019 Feb;18(2):383-390. doi: 10.1074/mcp.TIR118.000953. Epub 2018 Oct 29.


Phosphoproteomics in Microbiology: Protocols for Studying Streptomyces coelicolor Differentiation.

Manteca A, Rioseras B, Rogowska-Wrzesinska A, Jensen ON.

Methods Mol Biol. 2018;1841:249-260. doi: 10.1007/978-1-4939-8695-8_17.


Maximizing Sequence Coverage in Top-Down Proteomics By Automated Multimodal Gas-Phase Protein Fragmentation.

Shliaha PV, Gibb S, Gorshkov V, Jespersen MS, Andersen GR, Bailey D, Schwartz J, Eliuk S, Schwämmle V, Jensen ON.

Anal Chem. 2018 Nov 6;90(21):12519-12526. doi: 10.1021/acs.analchem.8b02344. Epub 2018 Oct 10.


Distinct Roles of Two Histone Methyltransferases in Transmitting H3K36me3-Based Epigenetic Memory Across Generations in Caenorhabditis elegans.

Kreher J, Takasaki T, Cockrum C, Sidoli S, Garcia BA, Jensen ON, Strome S.

Genetics. 2018 Nov;210(3):969-982. doi: 10.1534/genetics.118.301353. Epub 2018 Sep 14.


Evaluation of sample preparation methods for mass spectrometry-based proteomic analysis of barley leaves.

Wang WQ, Jensen ON, Møller IM, Hebelstrup KH, Rogowska-Wrzesinska A.

Plant Methods. 2018 Aug 25;14:72. doi: 10.1186/s13007-018-0341-4. eCollection 2018.


Extensive Characterization of Heavily Modified Histone Tails by 193 nm Ultraviolet Photodissociation Mass Spectrometry via a Middle-Down Strategy.

Greer SM, Sidoli S, Coradin M, Schack Jespersen M, Schwämmle V, Jensen ON, Garcia BA, Brodbelt JS.

Anal Chem. 2018 Sep 4;90(17):10425-10433. doi: 10.1021/acs.analchem.8b02320. Epub 2018 Aug 16.


The Tumor Suppressor CIC Directly Regulates MAPK Pathway Genes via Histone Deacetylation.

Weissmann S, Cloos PA, Sidoli S, Jensen ON, Pollard S, Helin K.

Cancer Res. 2018 Aug 1;78(15):4114-4125. doi: 10.1158/0008-5472.CAN-18-0342. Epub 2018 May 29.


Quantitative Proteome and Phosphoproteome Analyses of Streptomyces coelicolor Reveal Proteins and Phosphoproteins Modulating Differentiation and Secondary Metabolism.

Rioseras B, Shliaha PV, Gorshkov V, Yagüe P, López-García MT, Gonzalez-Quiñonez N, Kovalchuk S, Rogowska-Wrzesinska A, Jensen ON, Manteca A.

Mol Cell Proteomics. 2018 Aug;17(8):1591-1611. doi: 10.1074/mcp.RA117.000515. Epub 2018 May 21.


VSClust: feature-based variance-sensitive clustering of omics data.

Schwämmle V, Jensen ON.

Bioinformatics. 2018 Sep 1;34(17):2965-2972. doi: 10.1093/bioinformatics/bty224.


Accurate H3K27 methylation can be established de novo by SUZ12-directed PRC2.

Højfeldt JW, Laugesen A, Willumsen BM, Damhofer H, Hedehus L, Tvardovskiy A, Mohammad F, Jensen ON, Helin K.

Nat Struct Mol Biol. 2018 Mar;25(3):225-232. doi: 10.1038/s41594-018-0036-6. Epub 2018 Feb 26.


How many human proteoforms are there?

Aebersold R, Agar JN, Amster IJ, Baker MS, Bertozzi CR, Boja ES, Costello CE, Cravatt BF, Fenselau C, Garcia BA, Ge Y, Gunawardena J, Hendrickson RC, Hergenrother PJ, Huber CG, Ivanov AR, Jensen ON, Jewett MC, Kelleher NL, Kiessling LL, Krogan NJ, Larsen MR, Loo JA, Ogorzalek Loo RR, Lundberg E, MacCoss MJ, Mallick P, Mootha VK, Mrksich M, Muir TW, Patrie SM, Pesavento JJ, Pitteri SJ, Rodriguez H, Saghatelian A, Sandoval W, Schlüter H, Sechi S, Slavoff SA, Smith LM, Snyder MP, Thomas PM, Uhlén M, Van Eyk JE, Vidal M, Walt DR, White FM, Williams ER, Wohlschlager T, Wysocki VH, Yates NA, Young NL, Zhang B.

Nat Chem Biol. 2018 Feb 14;14(3):206-214. doi: 10.1038/nchembio.2576.


Linear and Differential Ion Mobility Separations of Middle-Down Proteoforms.

Garabedian A, Baird MA, Porter J, Jeanne Dit Fouque K, Shliaha PV, Jensen ON, Williams TD, Fernandez-Lima F, Shvartsburg AA.

Anal Chem. 2018 Feb 20;90(4):2918-2925. doi: 10.1021/acs.analchem.7b05224. Epub 2018 Feb 6.


Organic matter processing by microbial communities throughout the Atlantic water column as revealed by metaproteomics.

Bergauer K, Fernandez-Guerra A, Garcia JAL, Sprenger RR, Stepanauskas R, Pachiadaki MG, Jensen ON, Herndl GJ.

Proc Natl Acad Sci U S A. 2018 Jan 16;115(3):E400-E408. doi: 10.1073/pnas.1708779115. Epub 2017 Dec 18.


Phosphotyrosine Biased Enrichment of Tryptic Peptides from Cancer Cells by Combining pY-MIP and TiO2 Affinity Resins.

Bllaci L, Torsetnes SB, Wierzbicka C, Shinde S, Sellergren B, Rogowska-Wrzesinska A, Jensen ON.

Anal Chem. 2017 Nov 7;89(21):11332-11340. doi: 10.1021/acs.analchem.7b02091. Epub 2017 Oct 25.


Accumulation of histone variant H3.3 with age is associated with profound changes in the histone methylation landscape.

Tvardovskiy A, Schwämmle V, Kempf SJ, Rogowska-Wrzesinska A, Jensen ON.

Nucleic Acids Res. 2017 Sep 19;45(16):9272-9289. doi: 10.1093/nar/gkx696.


Molecularly Imprinted Porous Monolithic Materials from Melamine-Formaldehyde for Selective Trapping of Phosphopeptides.

Liu M, Tran TM, Abbas Elhaj AA, Bøen Torsetnes S, Jensen ON, Sellergren B, Irgum K.

Anal Chem. 2017 Sep 5;89(17):9491-9501. doi: 10.1021/acs.analchem.7b02470. Epub 2017 Aug 24.


Characterization of Complete Histone Tail Proteoforms Using Differential Ion Mobility Spectrometry.

Shliaha PV, Baird MA, Nielsen MM, Gorshkov V, Bowman AP, Kaszycki JL, Jensen ON, Shvartsburg AA.

Anal Chem. 2017 May 16;89(10):5461-5466. doi: 10.1021/acs.analchem.7b00379. Epub 2017 Apr 26.


Abnormal levels of histone methylation in the retinas of diabetic rats are reversed by minocycline treatment.

Wang W, Sidoli S, Zhang W, Wang Q, Wang L, Jensen ON, Guo L, Zhao X, Zheng L.

Sci Rep. 2017 Mar 24;7:45103. doi: 10.1038/srep45103.


EZH2 is a potential therapeutic target for H3K27M-mutant pediatric gliomas.

Mohammad F, Weissmann S, Leblanc B, Pandey DP, Højfeldt JW, Comet I, Zheng C, Johansen JV, Rapin N, Porse BT, Tvardovskiy A, Jensen ON, Olaciregui NG, Lavarino C, Suñol M, de Torres C, Mora J, Carcaboso AM, Helin K.

Nat Med. 2017 Apr;23(4):483-492. doi: 10.1038/nm.4293. Epub 2017 Feb 27.


A biotin enrichment strategy identifies novel carbonylated amino acids in proteins from human plasma.

Havelund JF, Wojdyla K, Davies MJ, Jensen ON, Møller IM, Rogowska-Wrzesinska A.

J Proteomics. 2017 Mar 6;156:40-51. doi: 10.1016/j.jprot.2016.12.019. Epub 2017 Jan 4.


Nuclear phosphoproteome analysis of 3T3-L1 preadipocyte differentiation reveals system-wide phosphorylation of transcriptional regulators.

Rabiee A, Schwämmle V, Sidoli S, Dai J, Rogowska-Wrzesinska A, Mandrup S, Jensen ON.

Proteomics. 2017 Mar;17(6). doi: 10.1002/pmic.201600248. Epub 2016 Dec 14.


Subcompartmentalization by cross-membranes during early growth of Streptomyces hyphae.

Yagüe P, Willemse J, Koning RI, Rioseras B, López-García MT, Gonzalez-Quiñonez N, Lopez-Iglesias C, Shliaha PV, Rogowska-Wrzesinska A, Koster AJ, Jensen ON, van Wezel GP, Manteca Á.

Nat Commun. 2016 Aug 12;7:12467. doi: 10.1038/ncomms12467.


Systems Level Analysis of Histone H3 Post-translational Modifications (PTMs) Reveals Features of PTM Crosstalk in Chromatin Regulation.

Schwämmle V, Sidoli S, Ruminowicz C, Wu X, Lee CF, Helin K, Jensen ON.

Mol Cell Proteomics. 2016 Aug;15(8):2715-29. doi: 10.1074/mcp.M115.054460. Epub 2016 Jun 14.


High-performance hybrid Orbitrap mass spectrometers for quantitative proteome analysis: Observations and implications.

Williamson JC, Edwards AV, Verano-Braga T, Schwämmle V, Kjeldsen F, Jensen ON, Larsen MR.

Proteomics. 2016 Mar;16(6):907-14. doi: 10.1002/pmic.201400545. Epub 2016 Mar 1.


Dynamic changes of histone H3 marks during Caenorhabditis elegans lifecycle revealed by middle-down proteomics.

Sidoli S, Vandamme J, Salcini AE, Jensen ON.

Proteomics. 2016 Feb;16(3):459-64. doi: 10.1002/pmic.201500285. Epub 2016 Jan 15.


H3K23me2 is a new heterochromatic mark in Caenorhabditis elegans.

Vandamme J, Sidoli S, Mariani L, Friis C, Christensen J, Helin K, Jensen ON, Salcini AE.

Nucleic Acids Res. 2015 Nov 16;43(20):9694-710. doi: 10.1093/nar/gkv1063. Epub 2015 Oct 17.


Tumor suppressor ASXL1 is essential for the activation of INK4B expression in response to oncogene activity and anti-proliferative signals.

Wu X, Bekker-Jensen IH, Christensen J, Rasmussen KD, Sidoli S, Qi Y, Kong Y, Wang X, Cui Y, Xiao Z, Xu G, Williams K, Rappsilber J, Sønderby CK, Winther O, Jensen ON, Helin K.

Cell Res. 2015 Nov;25(11):1205-18. doi: 10.1038/cr.2015.121. Epub 2015 Oct 16.


Top-down and Middle-down Protein Analysis Reveals that Intact and Clipped Human Histones Differ in Post-translational Modification Patterns.

Tvardovskiy A, Wrzesinski K, Sidoli S, Fey SJ, Rogowska-Wrzesinska A, Jensen ON.

Mol Cell Proteomics. 2015 Dec;14(12):3142-53. doi: 10.1074/mcp.M115.048975. Epub 2015 Sep 30.


NADH-Cytochrome b5 Reductase 3 Promotes Colonization and Metastasis Formation and Is a Prognostic Marker of Disease-Free and Overall Survival in Estrogen Receptor-Negative Breast Cancer.

Lund RR, Leth-Larsen R, Caterino TD, Terp MG, Nissen J, Lænkholm AV, Jensen ON, Ditzel HJ.

Mol Cell Proteomics. 2015 Nov;14(11):2988-99. doi: 10.1074/mcp.M115.050385. Epub 2015 Sep 8.


The human oral metaproteome reveals potential biomarkers for caries disease.

Belda-Ferre P, Williamson J, Simón-Soro Á, Artacho A, Jensen ON, Mira A.

Proteomics. 2015 Oct;15(20):3497-507. doi: 10.1002/pmic.201400600. Epub 2015 Sep 22.


A laser ablation ICP-MS based method for multiplexed immunoblot analysis: applications to manganese-dependent protein dynamics of photosystem II in barley (Hordeum vulgare L.).

de Bang TC, Petersen J, Pedas PR, Rogowska-Wrzesinska A, Jensen ON, Schjoerring JK, Jensen PE, Thelen JJ, Husted S.

Plant J. 2015 Aug;83(3):555-65. doi: 10.1111/tpj.12906.


Shotgun lipidomic analysis of chemically sulfated sterols compromises analytical sensitivity: Recommendation for large-scale global lipidome analysis.

Casanovas A, Hannibal-Bach HK, Jensen ON, Ejsing CS.

Eur J Lipid Sci Technol. 2014 Dec;116(12):1618-1620. Epub 2014 Oct 29. No abstract available.


Quantitative analysis of proteome and lipidome dynamics reveals functional regulation of global lipid metabolism.

Casanovas A, Sprenger RR, Tarasov K, Ruckerbauer DE, Hannibal-Bach HK, Zanghellini J, Jensen ON, Ejsing CS.

Chem Biol. 2015 Mar 19;22(3):412-25. doi: 10.1016/j.chembiol.2015.02.007.


Two distinct modes for propagation of histone PTMs across the cell cycle.

Alabert C, Barth TK, Reverón-Gómez N, Sidoli S, Schmidt A, Jensen ON, Imhof A, Groth A.

Genes Dev. 2015 Mar 15;29(6):585-90. doi: 10.1101/gad.256354.114.


Modulation of cell metabolic pathways and oxidative stress signaling contribute to acquired melphalan resistance in multiple myeloma cells.

Zub KA, Sousa MM, Sarno A, Sharma A, Demirovic A, Rao S, Young C, Aas PA, Ericsson I, Sundan A, Jensen ON, Slupphaug G.

PLoS One. 2015 Mar 13;10(3):e0119857. doi: 10.1371/journal.pone.0119857. eCollection 2015.


Detection and differentiation of 22 kDa and 20 kDa Growth Hormone proteoforms in human plasma by LC-MS/MS.

Such-Sanmartín G, Bache N, Bosch J, Gutiérrez-Gallego R, Segura J, Jensen ON.

Biochim Biophys Acta. 2015 Apr;1854(4):284-90. doi: 10.1016/j.bbapap.2014.12.022. Epub 2014 Dec 30.


FBXO22 protein is required for optimal synthesis of the N-methyl-D-aspartate (NMDA) receptor coagonist D-serine.

Dikopoltsev E, Foltyn VN, Zehl M, Jensen ON, Mori H, Radzishevsky I, Wolosker H.

J Biol Chem. 2014 Dec 5;289(49):33904-15. doi: 10.1074/jbc.M114.618405. Epub 2014 Oct 21.


Integrated solid-phase extraction-capillary liquid chromatography (speLC) interfaced to ESI-MS/MS for fast characterization and quantification of protein and proteomes.

Falkenby LG, Such-Sanmartín G, Larsen MR, Vorm O, Bache N, Jensen ON.

J Proteome Res. 2014 Dec 5;13(12):6169-75. doi: 10.1021/pr5008575. Epub 2014 Nov 20.


Targeted mass spectrometry analysis of the proteins IGF1, IGF2, IBP2, IBP3 and A2GL by blood protein precipitation.

Such-Sanmartín G, Bache N, Callesen AK, Rogowska-Wrzesinska A, Jensen ON.

J Proteomics. 2015 Jan 15;113:29-37. doi: 10.1016/j.jprot.2014.09.013. Epub 2014 Sep 30.


Proteomics in chromatin biology and epigenetics.

Vondriska TM, Jensen ON.

Proteomics. 2014 Oct;14(19):2105-8. doi: 10.1002/pmic.201470143. No abstract available.


Global mass spectrometry and transcriptomics array based drug profiling provides novel insight into glucosamine induced endoplasmic reticulum stress.

Carvalho AS, Ribeiro H, Voabil P, Penque D, Jensen ON, Molina H, Matthiesen R.

Mol Cell Proteomics. 2014 Dec;13(12):3294-307. doi: 10.1074/mcp.M113.034363. Epub 2014 Aug 15.


Middle-down hybrid chromatography/tandem mass spectrometry workflow for characterization of combinatorial post-translational modifications in histones.

Sidoli S, Schwämmle V, Ruminowicz C, Hansen TA, Wu X, Helin K, Jensen ON.

Proteomics. 2014 Oct;14(19):2200-11. doi: 10.1002/pmic.201400084. Epub 2014 Aug 28.


Selective renal vasoconstriction, exaggerated natriuresis and excretion rates of exosomic proteins in essential hypertension.

Damkjaer M, Jensen PH, Schwämmle V, Sprenger RR, Jacobsen IA, Jensen ON, Bie P.

Acta Physiol (Oxf). 2014 Sep;212(1):106-18. doi: 10.1111/apha.12345. Epub 2014 Jul 25.


Molecular architecture of transcription factor hotspots in early adipogenesis.

Siersbæk R, Baek S, Rabiee A, Nielsen R, Traynor S, Clark N, Sandelin A, Jensen ON, Sung MH, Hager GL, Mandrup S.

Cell Rep. 2014 Jun 12;7(5):1434-1442. doi: 10.1016/j.celrep.2014.04.043. Epub 2014 May 22.


Transcription factor cooperativity in early adipogenic hotspots and super-enhancers.

Siersbæk R, Rabiee A, Nielsen R, Sidoli S, Traynor S, Loft A, Poulsen LC, Rogowska-Wrzesinska A, Jensen ON, Mandrup S.

Cell Rep. 2014 Jun 12;7(5):1443-1455. doi: 10.1016/j.celrep.2014.04.042. Epub 2014 May 22.


Large scale analysis of co-existing post-translational modifications in histone tails reveals global fine structure of cross-talk.

Schwämmle V, Aspalter CM, Sidoli S, Jensen ON.

Mol Cell Proteomics. 2014 Jul;13(7):1855-65. doi: 10.1074/mcp.O113.036335. Epub 2014 Apr 16.


Insulin increases phosphorylation of mitochondrial proteins in human skeletal muscle in vivo.

Zhao X, Bak S, Pedersen AJ, Jensen ON, Højlund K.

J Proteome Res. 2014 May 2;13(5):2359-69. doi: 10.1021/pr401163t. Epub 2014 Mar 28.


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