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Items: 23

1.

ProteoSign: an end-user online differential proteomics statistical analysis platform.

Efstathiou G, Antonakis AN, Pavlopoulos GA, Theodosiou T, Divanach P, Trudgian DC, Thomas B, Papanikolaou N, Aivaliotis M, Acuto O, Iliopoulos I.

Nucleic Acids Res. 2017 Jul 3;45(W1):W300-W306. doi: 10.1093/nar/gkx444.

2.

Fucosylation and protein glycosylation create functional receptors for cholera toxin.

Wands AM, Fujita A, McCombs JE, Cervin J, Dedic B, Rodriguez AC, Nischan N, Bond MR, Mettlen M, Trudgian DC, Lemoff A, Quiding-Järbrink M, Gustavsson B, Steentoft C, Clausen H, Mirzaei H, Teneberg S, Yrlid U, Kohler JJ.

Elife. 2015 Oct 29;4:e09545. doi: 10.7554/eLife.09545.

3.

Type VI Secretion System Toxins Horizontally Shared between Marine Bacteria.

Salomon D, Klimko JA, Trudgian DC, Kinch LN, Grishin NV, Mirzaei H, Orth K.

PLoS Pathog. 2015 Aug 25;11(8):e1005128. doi: 10.1371/journal.ppat.1005128. eCollection 2015 Aug.

4.

Marker for type VI secretion system effectors.

Salomon D, Kinch LN, Trudgian DC, Guo X, Klimko JA, Grishin NV, Mirzaei H, Orth K.

Proc Natl Acad Sci U S A. 2014 Jun 24;111(25):9271-6. doi: 10.1073/pnas.1406110111. Epub 2014 Jun 9.

5.

GOAT--a simple LC-MS/MS gradient optimization tool.

Trudgian DC, Fischer R, Guo X, Kessler BM, Mirzaei H.

Proteomics. 2014 Jun;14(12):1467-71. doi: 10.1002/pmic.201300524. Epub 2014 May 15.

6.

Confetti: a multiprotease map of the HeLa proteome for comprehensive proteomics.

Guo X, Trudgian DC, Lemoff A, Yadavalli S, Mirzaei H.

Mol Cell Proteomics. 2014 Jun;13(6):1573-84. doi: 10.1074/mcp.M113.035170. Epub 2014 Apr 2.

7.

Optimal translational termination requires C4 lysyl hydroxylation of eRF1.

Feng T, Yamamoto A, Wilkins SE, Sokolova E, Yates LA, Münzel M, Singh P, Hopkinson RJ, Fischer R, Cockman ME, Shelley J, Trudgian DC, Schödel J, McCullagh JS, Ge W, Kessler BM, Gilbert RJ, Frolova LY, Alkalaeva E, Ratcliffe PJ, Schofield CJ, Coleman ML.

Mol Cell. 2014 Feb 20;53(4):645-54. doi: 10.1016/j.molcel.2013.12.028. Epub 2014 Jan 30.

8.

Quantitative phosphoproteome analysis unveils LAT as a modulator of CD3ζ and ZAP-70 tyrosine phosphorylation.

Salek M, McGowan S, Trudgian DC, Dushek O, de Wet B, Efstathiou G, Acuto O.

PLoS One. 2013 Oct 30;8(10):e77423. doi: 10.1371/journal.pone.0077423. eCollection 2013.

9.

Regulation of OSR1 and the sodium, potassium, two chloride cotransporter by convergent signals.

Sengupta S, Lorente-Rodríguez A, Earnest S, Stippec S, Guo X, Trudgian DC, Mirzaei H, Cobb MH.

Proc Natl Acad Sci U S A. 2013 Nov 19;110(47):18826-31. doi: 10.1073/pnas.1318676110. Epub 2013 Nov 4.

10.

Sulfur amino acids regulate translational capacity and metabolic homeostasis through modulation of tRNA thiolation.

Laxman S, Sutter BM, Wu X, Kumar S, Guo X, Trudgian DC, Mirzaei H, Tu BP.

Cell. 2013 Jul 18;154(2):416-29. doi: 10.1016/j.cell.2013.06.043.

11.

QuaNCAT: quantitating proteome dynamics in primary cells.

Howden AJ, Geoghegan V, Katsch K, Efstathiou G, Bhushan B, Boutureira O, Thomas B, Trudgian DC, Kessler BM, Dieterich DC, Davis BG, Acuto O.

Nat Methods. 2013 Apr;10(4):343-6. doi: 10.1038/nmeth.2401. Epub 2013 Mar 10.

12.

Mapping the phosphoproteome of influenza A and B viruses by mass spectrometry.

Hutchinson EC, Denham EM, Thomas B, Trudgian DC, Hester SS, Ridlova G, York A, Turrell L, Fodor E.

PLoS Pathog. 2012;8(11):e1002993. doi: 10.1371/journal.ppat.1002993. Epub 2012 Nov 8.

13.

Oxygenase-catalyzed ribosome hydroxylation occurs in prokaryotes and humans.

Ge W, Wolf A, Feng T, Ho CH, Sekirnik R, Zayer A, Granatino N, Cockman ME, Loenarz C, Loik ND, Hardy AP, Claridge TDW, Hamed RB, Chowdhury R, Gong L, Robinson CV, Trudgian DC, Jiang M, Mackeen MM, Mccullagh JS, Gordiyenko Y, Thalhammer A, Yamamoto A, Yang M, Liu-Yi P, Zhang Z, Schmidt-Zachmann M, Kessler BM, Ratcliffe PJ, Preston GM, Coleman ML, Schofield CJ.

Nat Chem Biol. 2012 Dec;8(12):960-962. doi: 10.1038/nchembio.1093. Epub 2012 Oct 28.

14.

Cloud CPFP: a shotgun proteomics data analysis pipeline using cloud and high performance computing.

Trudgian DC, Mirzaei H.

J Proteome Res. 2012 Dec 7;11(12):6282-90. doi: 10.1021/pr300694b. Epub 2012 Oct 29.

PMID:
23088505
15.

A method for large-scale identification of protein arginine methylation.

Uhlmann T, Geoghegan VL, Thomas B, Ridlova G, Trudgian DC, Acuto O.

Mol Cell Proteomics. 2012 Nov;11(11):1489-99. doi: 10.1074/mcp.M112.020743. Epub 2012 Aug 3.

16.

The FIH hydroxylase is a cellular peroxide sensor that modulates HIF transcriptional activity.

Masson N, Singleton RS, Sekirnik R, Trudgian DC, Ambrose LJ, Miranda MX, Tian YM, Kessler BM, Schofield CJ, Ratcliffe PJ.

EMBO Rep. 2012 Mar 1;13(3):251-7. doi: 10.1038/embor.2012.9.

17.

Discovery of candidate serum proteomic and metabolomic biomarkers in ankylosing spondylitis.

Fischer R, Trudgian DC, Wright C, Thomas G, Bradbury LA, Brown MA, Bowness P, Kessler BM.

Mol Cell Proteomics. 2012 Feb;11(2):M111.013904. doi: 10.1074/mcp.M111.013904. Epub 2011 Oct 13.

18.

Quantitative mass spectrometry reveals dynamics of factor-inhibiting hypoxia-inducible factor-catalyzed hydroxylation.

Singleton RS, Trudgian DC, Fischer R, Kessler BM, Ratcliffe PJ, Cockman ME.

J Biol Chem. 2011 Sep 30;286(39):33784-94. doi: 10.1074/jbc.M111.262808. Epub 2011 Jul 30.

19.

Protein kinase C and NF-κB-dependent CD4 downregulation in macrophages induced by T cell-derived soluble factors: consequences for HIV-1 infection.

Raposo RA, Trudgian DC, Thomas B, van Wilgenburg B, Cowley SA, James W.

J Immunol. 2011 Jul 15;187(2):748-59. doi: 10.4049/jimmunol.1003678. Epub 2011 Jun 10.

20.

Comparative evaluation of label-free SINQ normalized spectral index quantitation in the central proteomics facilities pipeline.

Trudgian DC, Ridlova G, Fischer R, Mackeen MM, Ternette N, Acuto O, Kessler BM, Thomas B.

Proteomics. 2011 Jul;11(14):2790-7. doi: 10.1002/pmic.201000800. Epub 2011 Jun 8.

PMID:
21656681
21.

Label-free quantitative proteomics reveals differentially regulated proteins influencing urolithiasis.

Wright CA, Howles S, Trudgian DC, Kessler BM, Reynard JM, Noble JG, Hamdy FC, Turney BW.

Mol Cell Proteomics. 2011 Aug;10(8):M110.005686. doi: 10.1074/mcp.M110.005686. Epub 2011 Apr 7.

22.

T cell receptor (TCR)-induced tyrosine phosphorylation dynamics identifies THEMIS as a new TCR signalosome component.

Brockmeyer C, Paster W, Pepper D, Tan CP, Trudgian DC, McGowan S, Fu G, Gascoigne NR, Acuto O, Salek M.

J Biol Chem. 2011 Mar 4;286(9):7535-47. doi: 10.1074/jbc.M110.201236. Epub 2010 Dec 28.

23.

CPFP: a central proteomics facilities pipeline.

Trudgian DC, Thomas B, McGowan SJ, Kessler BM, Salek M, Acuto O.

Bioinformatics. 2010 Apr 15;26(8):1131-2. doi: 10.1093/bioinformatics/btq081. Epub 2010 Feb 25.

PMID:
20189941

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