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Items: 1 to 20 of 117

1.

A large synthetic peptide and phosphopeptide reference library for mass spectrometry-based proteomics.

Marx H, Lemeer S, Schliep JE, Matheron L, Mohammed S, Cox J, Mann M, Heck AJ, Kuster B.

Nat Biotechnol. 2013 Jun;31(6):557-64. doi: 10.1038/nbt.2585. Epub 2013 May 19.

PMID:
23685481
2.

Confident phosphorylation site localization using the Mascot Delta Score.

Savitski MM, Lemeer S, Boesche M, Lang M, Mathieson T, Bantscheff M, Kuster B.

Mol Cell Proteomics. 2011 Feb;10(2):M110.003830. doi: 10.1074/mcp.M110.003830. Epub 2010 Nov 6.

3.

Confident site localization using a simulated phosphopeptide spectral library.

Suni V, Imanishi SY, Maiolica A, Aebersold R, Corthals GL.

J Proteome Res. 2015 May 1;14(5):2348-59. doi: 10.1021/acs.jproteome.5b00050. Epub 2015 Mar 27.

PMID:
25774671
4.

Comparison of alternative MS/MS and bioinformatics approaches for confident phosphorylation site localization.

Wiese H, Kuhlmann K, Wiese S, Stoepel NS, Pawlas M, Meyer HE, Stephan C, Eisenacher M, Drepper F, Warscheid B.

J Proteome Res. 2014 Feb 7;13(2):1128-37. doi: 10.1021/pr400402s. Epub 2014 Jan 3.

PMID:
24364495
5.

LuciPHOr: algorithm for phosphorylation site localization with false localization rate estimation using modified target-decoy approach.

Fermin D, Walmsley SJ, Gingras AC, Choi H, Nesvizhskii AI.

Mol Cell Proteomics. 2013 Nov;12(11):3409-19. doi: 10.1074/mcp.M113.028928. Epub 2013 Aug 5.

6.

Confident and sensitive phosphoproteomics using combinations of collision induced dissociation and electron transfer dissociation.

Collins MO, Wright JC, Jones M, Rayner JC, Choudhary JS.

J Proteomics. 2014 May 30;103:1-14. doi: 10.1016/j.jprot.2014.03.010. Epub 2014 Mar 21.

7.

Improved peptide identification for proteomic analysis based on comprehensive characterization of electron transfer dissociation spectra.

Sun RX, Dong MQ, Song CQ, Chi H, Yang B, Xiu LY, Tao L, Jing ZY, Liu C, Wang LH, Fu Y, He SM.

J Proteome Res. 2010 Dec 3;9(12):6354-67. doi: 10.1021/pr100648r. Epub 2010 Nov 12.

PMID:
20883037
8.

Universal and confident phosphorylation site localization using phosphoRS.

Taus T, Köcher T, Pichler P, Paschke C, Schmidt A, Henrich C, Mechtler K.

J Proteome Res. 2011 Dec 2;10(12):5354-62. doi: 10.1021/pr200611n. Epub 2011 Nov 10.

PMID:
22073976
9.

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
10.

Proteomics: Peptides aplenty.

Doerr A.

Nat Methods. 2013 Jul;10(7):609. No abstract available.

PMID:
23967485
11.

Mass spectrometry-driven phosphoproteomics: patterning the systems biology mosaic.

Jünger MA, Aebersold R.

Wiley Interdiscip Rev Dev Biol. 2014 Jan-Feb;3(1):83-112. doi: 10.1002/wdev.121. Epub 2013 Jul 2. Review.

PMID:
24902836
12.

Improved peptide identification by targeted fragmentation using CID, HCD and ETD on an LTQ-Orbitrap Velos.

Frese CK, Altelaar AF, Hennrich ML, Nolting D, Zeller M, Griep-Raming J, Heck AJ, Mohammed S.

J Proteome Res. 2011 May 6;10(5):2377-88. doi: 10.1021/pr1011729. Epub 2011 Apr 1.

PMID:
21413819
13.

Effects of electron-transfer coupled with collision-induced dissociation (ET/CID) on doubly charged peptides and phosphopeptides.

Liu CW, Lai CC.

J Am Soc Mass Spectrom. 2011 Jan;22(1):57-66. doi: 10.1007/s13361-010-0020-9. Epub 2011 Jan 27.

PMID:
21472544
14.

PTM MarkerFinder, a software tool to detect and validate spectra from peptides carrying post-translational modifications.

Nanni P, Panse C, Gehrig P, Mueller S, Grossmann J, Schlapbach R.

Proteomics. 2013 Aug;13(15):2251-5. doi: 10.1002/pmic.201300036. Epub 2013 Jul 1.

PMID:
23713006
15.

Automated phosphopeptide identification using multiple MS/MS fragmentation modes.

Vandenbogaert M, Hourdel V, Jardin-Mathé O, Bigeard J, Bonhomme L, Legros V, Hirt H, Schwikowski B, Pflieger D.

J Proteome Res. 2012 Dec 7;11(12):5695-703. doi: 10.1021/pr300507j. Epub 2012 Nov 7.

PMID:
23094866
16.

Effectiveness of CID, HCD, and ETD with FT MS/MS for degradomic-peptidomic analysis: comparison of peptide identification methods.

Shen Y, Tolić N, Xie F, Zhao R, Purvine SO, Schepmoes AA, Moore RJ, Anderson GA, Smith RD.

J Proteome Res. 2011 Sep 2;10(9):3929-43. doi: 10.1021/pr200052c. Epub 2011 Aug 15.

17.

Global proteomic profiling of phosphopeptides using electron transfer dissociation tandem mass spectrometry.

Molina H, Horn DM, Tang N, Mathivanan S, Pandey A.

Proc Natl Acad Sci U S A. 2007 Feb 13;104(7):2199-204. Epub 2007 Feb 7.

18.

Enhanced peptide identification by electron transfer dissociation using an improved Mascot Percolator.

Wright JC, Collins MO, Yu L, Käll L, Brosch M, Choudhary JS.

Mol Cell Proteomics. 2012 Aug;11(8):478-91. doi: 10.1074/mcp.O111.014522. Epub 2012 Apr 6.

19.

Systematic evaluation of alternating CID and ETD fragmentation for phosphorylated peptides.

Kim MS, Zhong J, Kandasamy K, Delanghe B, Pandey A.

Proteomics. 2011 Jun;11(12):2568-72. doi: 10.1002/pmic.201000547. Epub 2011 May 20.

20.

An integrated chemical, mass spectrometric and computational strategy for (quantitative) phosphoproteomics: application to Drosophila melanogaster Kc167 cells.

Bodenmiller B, Mueller LN, Pedrioli PG, Pflieger D, Jünger MA, Eng JK, Aebersold R, Tao WA.

Mol Biosyst. 2007 Apr;3(4):275-86. Epub 2007 Feb 19.

PMID:
17372656

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