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Results: 1 to 20 of 107

1.

Repeatability and reproducibility in proteomic identifications by liquid chromatography-tandem mass spectrometry.

Tabb DL, Vega-Montoto L, Rudnick PA, Variyath AM, Ham AJ, Bunk DM, Kilpatrick LE, Billheimer DD, Blackman RK, Cardasis HL, Carr SA, Clauser KR, Jaffe JD, Kowalski KA, Neubert TA, Regnier FE, Schilling B, Tegeler TJ, Wang M, Wang P, Whiteaker JR, Zimmerman LJ, Fisher SJ, Gibson BW, Kinsinger CR, Mesri M, Rodriguez H, Stein SE, Tempst P, Paulovich AG, Liebler DC, Spiegelman C.

J Proteome Res. 2010 Feb 5;9(2):761-76. doi: 10.1021/pr9006365.

PMID:
19921851
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

High-throughput database search and large-scale negative polarity liquid chromatography-tandem mass spectrometry with ultraviolet photodissociation for complex proteomic samples.

Madsen JA, Xu H, Robinson MR, Horton AP, Shaw JB, Giles DK, Kaoud TS, Dalby KN, Trent MS, Brodbelt JS.

Mol Cell Proteomics. 2013 Sep;12(9):2604-14. doi: 10.1074/mcp.O113.028258. Epub 2013 May 21.

PMID:
23695934
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Equivalence of protein inventories obtained from formalin-fixed paraffin-embedded and frozen tissue in multidimensional liquid chromatography-tandem mass spectrometry shotgun proteomic analysis.

Sprung RW Jr, Brock JW, Tanksley JP, Li M, Washington MK, Slebos RJ, Liebler DC.

Mol Cell Proteomics. 2009 Aug;8(8):1988-98. doi: 10.1074/mcp.M800518-MCP200. Epub 2009 May 24.

PMID:
19467989
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Evaluation of strong cation exchange versus isoelectric focusing of peptides for multidimensional liquid chromatography-tandem mass spectrometry.

Slebos RJ, Brock JW, Winters NF, Stuart SR, Martinez MA, Li M, Chambers MC, Zimmerman LJ, Ham AJ, Tabb DL, Liebler DC.

J Proteome Res. 2008 Dec;7(12):5286-94. doi: 10.1021/pr8004666.

PMID:
18939861
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Effect of mass spectrometric parameters on peptide and protein identification rates for shotgun proteomic experiments on an LTQ-orbitrap mass analyzer.

Kalli A, Hess S.

Proteomics. 2012 Jan;12(1):21-31. doi: 10.1002/pmic.201100464. Epub 2011 Nov 29.

PMID:
22065615
[PubMed - indexed for MEDLINE]
6.

Shape-based feature matching improves protein identification via LC-MS and tandem MS.

Noy K, Towfic F, Wittenberg GM, Fasulo D.

J Comput Biol. 2011 Apr;18(4):547-57. doi: 10.1089/cmb.2010.0155. Epub 2011 Mar 21.

PMID:
21417940
[PubMed - indexed for MEDLINE]
7.

Increased confidence in large-scale phosphoproteomics data by complementary mass spectrometric techniques and matching of phosphopeptide data sets.

Alcolea MP, Kleiner O, Cutillas PR.

J Proteome Res. 2009 Aug;8(8):3808-15. doi: 10.1021/pr800955n.

PMID:
19537829
[PubMed - indexed for MEDLINE]
8.

Enhanced peptide quantification using spectral count clustering and cluster abundance.

Lee S, Kwon MS, Lee HJ, Paik YK, Tang H, Lee JK, Park T.

BMC Bioinformatics. 2011 Oct 28;12:423. doi: 10.1186/1471-2105-12-423.

PMID:
22034872
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Enhanced characterization of complex proteomic samples using LC-MALDI MS/MS: exclusion of redundant peptides from MS/MS analysis in replicate runs.

Chen HS, Rejtar T, Andreev V, Moskovets E, Karger BL.

Anal Chem. 2005 Dec 1;77(23):7816-25.

PMID:
16316193
[PubMed - indexed for MEDLINE]
10.

Performance metrics for liquid chromatography-tandem mass spectrometry systems in proteomics analyses.

Rudnick PA, Clauser KR, Kilpatrick LE, Tchekhovskoi DV, Neta P, Blonder N, Billheimer DD, Blackman RK, Bunk DM, Cardasis HL, Ham AJ, Jaffe JD, Kinsinger CR, Mesri M, Neubert TA, Schilling B, Tabb DL, Tegeler TJ, Vega-Montoto L, Variyath AM, Wang M, Wang P, Whiteaker JR, Zimmerman LJ, Carr SA, Fisher SJ, Gibson BW, Paulovich AG, Regnier FE, Rodriguez H, Spiegelman C, Tempst P, Liebler DC, Stein SE.

Mol Cell Proteomics. 2010 Feb;9(2):225-41. doi: 10.1074/mcp.M900223-MCP200. Epub 2009 Oct 16.

PMID:
19837981
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Information-dependent LC-MS/MS acquisition with exclusion lists potentially generated on-the-fly: case study using a whole cell digest of Clostridium thermocellum.

McQueen P, Spicer V, Rydzak T, Sparling R, Levin D, Wilkins JA, Krokhin O.

Proteomics. 2012 Apr;12(8):1160-9. doi: 10.1002/pmic.201100425.

PMID:
22577018
[PubMed - indexed for MEDLINE]
12.

The influence of sample preparation and replicate analyses on HeLa Cell phosphoproteome coverage.

Ham BM, Yang F, Jayachandran H, Jaitly N, Monroe ME, Gritsenko MA, Livesay EA, Zhao R, Purvine SO, Orton D, Adkins JN, Camp DG 2nd, Rossie S, Smith RD.

J Proteome Res. 2008 Jun;7(6):2215-21. doi: 10.1021/pr700575m. Epub 2008 Apr 16.

PMID:
18412383
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Cysteinyl peptide capture for shotgun proteomics: global assessment of chemoselective fractionation.

Lin D, Li J, Slebos RJ, Liebler DC.

J Proteome Res. 2010 Oct 1;9(10):5461-72. doi: 10.1021/pr1007015.

PMID:
20731415
[PubMed - indexed for MEDLINE]
Free PMC Article
14.
15.

Immunodepletion plasma proteomics by tripleTOF 5600 and Orbitrap elite/LTQ-Orbitrap Velos/Q exactive mass spectrometers.

Jones KA, Kim PD, Patel BB, Kelsen SG, Braverman A, Swinton DJ, Gafken PR, Jones LA, Lane WS, Neveu JM, Leung HC, Shaffer SA, Leszyk JD, Stanley BA, Fox TE, Stanley A, Hall MJ, Hampel H, South CD, de la Chapelle A, Burt RW, Jones DA, Kopelovich L, Yeung AT.

J Proteome Res. 2013 Oct 4;12(10):4351-65. doi: 10.1021/pr400307u. Epub 2013 Sep 19.

PMID:
24004147
[PubMed - indexed for MEDLINE]
16.

Online nanoflow reversed phase-strong anion exchange-reversed phase liquid chromatography-tandem mass spectrometry platform for efficient and in-depth proteome sequence analysis of complex organisms.

Zhou F, Sikorski TW, Ficarro SB, Webber JT, Marto JA.

Anal Chem. 2011 Sep 15;83(18):6996-7005. doi: 10.1021/ac200639v. Epub 2011 Aug 18.

PMID:
21851055
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Comparison of 1-D and 2-D LC MS/MS methods for proteomic analysis of human serum.

Gilar M, Olivova P, Chakraborty AB, Jaworski A, Geromanos SJ, Gebler JC.

Electrophoresis. 2009 Apr;30(7):1157-67. doi: 10.1002/elps.200800630.

PMID:
19283699
[PubMed - indexed for MEDLINE]
18.

The APEX Quantitative Proteomics Tool: generating protein quantitation estimates from LC-MS/MS proteomics results.

Braisted JC, Kuntumalla S, Vogel C, Marcotte EM, Rodrigues AR, Wang R, Huang ST, Ferlanti ES, Saeed AI, Fleischmann RD, Peterson SN, Pieper R.

BMC Bioinformatics. 2008 Dec 9;9:529. doi: 10.1186/1471-2105-9-529.

PMID:
19068132
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

The EIPeptiDi tool: enhancing peptide discovery in ICAT-based LC MS/MS experiments.

Cannataro M, Cuda G, Gaspari M, Greco S, Tradigo G, Veltri P.

BMC Bioinformatics. 2007 Jul 15;8:255.

PMID:
17631686
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Repeatability of peptide identifications in shotgun proteome analysis employing off-line two-dimensional chromatographic separations and ion-trap MS.

Delmotte N, Lasaosa M, Tholey A, Heinzle E, van Dorsselaer A, Huber CG.

J Sep Sci. 2009 Apr;32(8):1156-64. doi: 10.1002/jssc.200800615.

PMID:
19360783
[PubMed - indexed for MEDLINE]

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