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Items: 1 to 20 of 24

1.

A tissue-based draft map of the murine MHC class I immunopeptidome.

Schuster H, Shao W, Weiss T, Pedrioli PGA, Roth P, Weller M, Campbell DS, Deutsch EW, Moritz RL, Planz O, Rammensee HG, Aebersold R, Caron E.

Sci Data. 2018 Aug 7;5:180157. doi: 10.1038/sdata.2018.157.

2.

The SysteMHC Atlas project.

Shao W, Pedrioli PGA, Wolski W, Scurtescu C, Schmid E, Vizcaíno JA, Courcelles M, Schuster H, Kowalewski D, Marino F, Arlehamn CSL, Vaughan K, Peters B, Sette A, Ottenhoff THM, Meijgaarden KE, Nieuwenhuizen N, Kaufmann SHE, Schlapbach R, Castle JC, Nesvizhskii AI, Nielsen M, Deutsch EW, Campbell DS, Moritz RL, Zubarev RA, Ytterberg AJ, Purcell AW, Marcilla M, Paradela A, Wang Q, Costello CE, Ternette N, van Veelen PA, van Els CACM, Heck AJR, de Souza GA, Sollid LM, Admon A, Stevanovic S, Rammensee HG, Thibault P, Perreault C, Bassani-Sternberg M, Aebersold R, Caron E.

Nucleic Acids Res. 2018 Jan 4;46(D1):D1237-D1247. doi: 10.1093/nar/gkx664.

3.

Statistical control of peptide and protein error rates in large-scale targeted data-independent acquisition analyses.

Rosenberger G, Bludau I, Schmitt U, Heusel M, Hunter CL, Liu Y, MacCoss MJ, MacLean BX, Nesvizhskii AI, Pedrioli PGA, Reiter L, Röst HL, Tate S, Ting YS, Collins BC, Aebersold R.

Nat Methods. 2017 Sep;14(9):921-927. doi: 10.1038/nmeth.4398. Epub 2017 Aug 21.

4.

Protein degradation and dynamic tRNA thiolation fine-tune translation at elevated temperatures.

Tyagi K, Pedrioli PG.

Nucleic Acids Res. 2015 May 19;43(9):4701-12. doi: 10.1093/nar/gkv322. Epub 2015 Apr 13.

5.

VAPB/ALS8 interacts with FFAT-like proteins including the p97 cofactor FAF1 and the ASNA1 ATPase.

Baron Y, Pedrioli PG, Tyagi K, Johnson C, Wood NT, Fountaine D, Wightman M, Alexandru G.

BMC Biol. 2014 May 29;12:39. doi: 10.1186/1741-7007-12-39.

6.

Phosphorylation of Parkin at Serine65 is essential for activation: elaboration of a Miro1 substrate-based assay of Parkin E3 ligase activity.

Kazlauskaite A, Kelly V, Johnson C, Baillie C, Hastie CJ, Peggie M, Macartney T, Woodroof HI, Alessi DR, Pedrioli PG, Muqit MM.

Open Biol. 2014 Mar 19;4:130213. doi: 10.1098/rsob.130213.

7.

Activation of the canonical IKK complex by K63/M1-linked hybrid ubiquitin chains.

Emmerich CH, Ordureau A, Strickson S, Arthur JS, Pedrioli PG, Komander D, Cohen P.

Proc Natl Acad Sci U S A. 2013 Sep 17;110(38):15247-52. doi: 10.1073/pnas.1314715110. Epub 2013 Aug 28.

8.

tRNA tKUUU, tQUUG, and tEUUC wobble position modifications fine-tune protein translation by promoting ribosome A-site binding.

Rezgui VA, Tyagi K, Ranjan N, Konevega AL, Mittelstaet J, Rodnina MV, Peter M, Pedrioli PG.

Proc Natl Acad Sci U S A. 2013 Jul 23;110(30):12289-94. doi: 10.1073/pnas.1300781110. Epub 2013 Jul 8.

9.

Hydrophilic strong anion exchange (hSAX) chromatography for highly orthogonal peptide separation of complex proteomes.

Ritorto MS, Cook K, Tyagi K, Pedrioli PG, Trost M.

J Proteome Res. 2013 Jun 7;12(6):2449-57. doi: 10.1021/pr301011r. Epub 2013 Jan 7.

10.

PGE(2) induces macrophage IL-10 production and a regulatory-like phenotype via a protein kinase A-SIK-CRTC3 pathway.

MacKenzie KF, Clark K, Naqvi S, McGuire VA, Nöehren G, Kristariyanto Y, van den Bosch M, Mudaliar M, McCarthy PC, Pattison MJ, Pedrioli PG, Barton GJ, Toth R, Prescott A, Arthur JS.

J Immunol. 2013 Jan 15;190(2):565-77. doi: 10.4049/jimmunol.1202462. Epub 2012 Dec 14.

11.

Phosphorylation of CRTC3 by the salt-inducible kinases controls the interconversion of classically activated and regulatory macrophages.

Clark K, MacKenzie KF, Petkevicius K, Kristariyanto Y, Zhang J, Choi HG, Peggie M, Plater L, Pedrioli PG, McIver E, Gray NS, Arthur JS, Cohen P.

Proc Natl Acad Sci U S A. 2012 Oct 16;109(42):16986-91. doi: 10.1073/pnas.1215450109. Epub 2012 Oct 2.

12.

Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.

Bodenmiller B, Wanka S, Kraft C, Urban J, Campbell D, Pedrioli PG, Gerrits B, Picotti P, Lam H, Vitek O, Brusniak MY, Roschitzki B, Zhang C, Shokat KM, Schlapbach R, Colman-Lerner A, Nolan GP, Nesvizhskii AI, Peter M, Loewith R, von Mering C, Aebersold R.

Sci Signal. 2010 Dec 21;3(153):rs4. doi: 10.1126/scisignal.2001182.

13.

RNAi-based screening identifies the Mms22L-Nfkbil2 complex as a novel regulator of DNA replication in human cells.

Piwko W, Olma MH, Held M, Bianco JN, Pedrioli PG, Hofmann K, Pasero P, Gerlich DW, Peter M.

EMBO J. 2010 Dec 15;29(24):4210-22. doi: 10.1038/emboj.2010.304. Epub 2010 Nov 26.

14.

An improved SUMmOn-based methodology for the identification of ubiquitin and ubiquitin-like protein conjugation sites identifies novel ubiquitin-like protein chain linkages.

Jeram SM, Srikumar T, Zhang XD, Anne Eisenhauer H, Rogers R, Pedrioli PG, Matunis M, Raught B.

Proteomics. 2010 Jan;10(2):254-65. doi: 10.1002/pmic.200900648.

15.

Trans-proteomic pipeline: a pipeline for proteomic analysis.

Pedrioli PG.

Methods Mol Biol. 2010;604:213-38. doi: 10.1007/978-1-60761-444-9_15.

PMID:
20013374
16.

Using mass spectrometry to identify ubiquitin and ubiquitin-like protein conjugation sites.

Jeram SM, Srikumar T, Pedrioli PG, Raught B.

Proteomics. 2009 Feb;9(4):922-34. doi: 10.1002/pmic.200800666. Review. Erratum in: Proteomics. 2009 Jun;9(11):3220.

PMID:
19180541
17.

Ubiquitin-related modifier Urm1 acts as a sulphur carrier in thiolation of eukaryotic transfer RNA.

Leidel S, Pedrioli PG, Bucher T, Brost R, Costanzo M, Schmidt A, Aebersold R, Boone C, Hofmann K, Peter M.

Nature. 2009 Mar 12;458(7235):228-32. doi: 10.1038/nature07643. Epub 2009 Jan 14.

PMID:
19145231
18.

Urm1 at the crossroad of modifications. 'Protein Modifications: Beyond the Usual Suspects' Review Series.

Pedrioli PG, Leidel S, Hofmann K.

EMBO Rep. 2008 Dec;9(12):1196-202. doi: 10.1038/embor.2008.209. Review.

19.

PhosphoPep--a phosphoproteome resource for systems biology research in Drosophila Kc167 cells.

Bodenmiller B, Malmstrom J, Gerrits B, Campbell D, Lam H, Schmidt A, Rinner O, Mueller LN, Shannon PT, Pedrioli PG, Panse C, Lee HK, Schlapbach R, Aebersold R.

Mol Syst Biol. 2007;3:139. Epub 2007 Oct 16. Review.

20.

A high-quality catalog of the Drosophila melanogaster proteome.

Brunner E, Ahrens CH, Mohanty S, Baetschmann H, Loevenich S, Potthast F, Deutsch EW, Panse C, de Lichtenberg U, Rinner O, Lee H, Pedrioli PG, Malmstrom J, Koehler K, Schrimpf S, Krijgsveld J, Kregenow F, Heck AJ, Hafen E, Schlapbach R, Aebersold R.

Nat Biotechnol. 2007 May;25(5):576-83. Epub 2007 Apr 22.

PMID:
17450130

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