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Items: 1 to 20 of 101

1.

Accurate label-free protein quantitation with high- and low-resolution mass spectrometers.

Krey JF, Wilmarth PA, Shin JB, Klimek J, Sherman NE, Jeffery ED, Choi D, David LL, Barr-Gillespie PG.

J Proteome Res. 2014 Feb 7;13(2):1034-44. doi: 10.1021/pr401017h. Epub 2013 Dec 10.

2.

MS1 Peptide Ion Intensity Chromatograms in MS2 (SWATH) Data Independent Acquisitions. Improving Post Acquisition Analysis of Proteomic Experiments.

Rardin MJ, Schilling B, Cheng LY, MacLean BX, Sorensen DJ, Sahu AK, MacCoss MJ, Vitek O, Gibson BW.

Mol Cell Proteomics. 2015 Sep;14(9):2405-19. doi: 10.1074/mcp.O115.048181. Epub 2015 May 17.

3.

Optimization of Search Engines and Postprocessing Approaches to Maximize Peptide and Protein Identification for High-Resolution Mass Data.

Tu C, Sheng Q, Li J, Ma D, Shen X, Wang X, Shyr Y, Yi Z, Qu J.

J Proteome Res. 2015 Nov 6;14(11):4662-73. doi: 10.1021/acs.jproteome.5b00536. Epub 2015 Sep 30.

4.

Hair-bundle proteomes of avian and mammalian inner-ear utricles.

Wilmarth PA, Krey JF, Shin JB, Choi D, David LL, Barr-Gillespie PG.

Sci Data. 2015 Dec 8;2:150074. doi: 10.1038/sdata.2015.74.

5.

HCD-only fragmentation method balances peptide identification and quantitation of TMT-labeled samples in hybrid linear ion trap/orbitrap mass spectrometers.

Chiva C, Sabidó E.

J Proteomics. 2014 Jan 16;96:263-70. doi: 10.1016/j.jprot.2013.11.013. Epub 2013 Nov 23.

PMID:
24275568
6.

Systematic assessment of survey scan and MS2-based abundance strategies for label-free quantitative proteomics using high-resolution MS data.

Tu C, Li J, Sheng Q, Zhang M, Qu J.

J Proteome Res. 2014 Apr 4;13(4):2069-79. doi: 10.1021/pr401206m. Epub 2014 Mar 24.

7.

Comparison of label-free methods for quantifying human proteins by shotgun proteomics.

Old WM, Meyer-Arendt K, Aveline-Wolf L, Pierce KG, Mendoza A, Sevinsky JR, Resing KA, Ahn NG.

Mol Cell Proteomics. 2005 Oct;4(10):1487-502. Epub 2005 Jun 23.

8.

MS1-based label-free proteomics using a quadrupole orbitrap mass spectrometer.

Shalit T, Elinger D, Savidor A, Gabashvili A, Levin Y.

J Proteome Res. 2015 Apr 3;14(4):1979-86. doi: 10.1021/pr501045t. Epub 2015 Mar 24.

PMID:
25780947
9.

A simple peak detection and label-free quantitation algorithm for chromatography-mass spectrometry.

Aoshima K, Takahashi K, Ikawa M, Kimura T, Fukuda M, Tanaka S, Parry HE, Fujita Y, Yoshizawa AC, Utsunomiya S, Kajihara S, Tanaka K, Oda Y.

BMC Bioinformatics. 2014 Nov 25;15:376. doi: 10.1186/s12859-014-0376-0.

10.

SAINT-MS1: protein-protein interaction scoring using label-free intensity data in affinity purification-mass spectrometry experiments.

Choi H, Glatter T, Gstaiger M, Nesvizhskii AI.

J Proteome Res. 2012 Apr 6;11(4):2619-24. doi: 10.1021/pr201185r. Epub 2012 Mar 2.

11.

Platform-independent and label-free quantitation of proteomic data using MS1 extracted ion chromatograms in skyline: application to protein acetylation and phosphorylation.

Schilling B, Rardin MJ, MacLean BX, Zawadzka AM, Frewen BE, Cusack MP, Sorensen DJ, Bereman MS, Jing E, Wu CC, Verdin E, Kahn CR, Maccoss MJ, Gibson BW.

Mol Cell Proteomics. 2012 May;11(5):202-14. doi: 10.1074/mcp.M112.017707. Epub 2012 Mar 26.

12.

High resolution is not a strict requirement for characterization and quantification of histone post-translational modifications.

Karch KR, Zee BM, Garcia BA.

J Proteome Res. 2014 Dec 5;13(12):6152-9. doi: 10.1021/pr500902f. Epub 2014 Oct 30.

13.

Candidate biomarker discovery for angiogenesis by automatic integration of Orbitrap MS1 spectral- and X!Tandem MS2 sequencing information.

Titulaer MK.

Genomics Proteomics Bioinformatics. 2013 Jun;11(3):182-94. doi: 10.1016/j.gpb.2013.02.002. Epub 2013 Apr 2.

14.

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.

15.

Label-Free Quantitation and Mapping of the ErbB2 Tumor Receptor by Multiple Protease Digestion with Data-Dependent (MS1) and Data-Independent (MS2) Acquisitions.

Held JM, Schilling B, D'Souza AK, Srinivasan T, Behring JB, Sorensen DJ, Benz CC, Gibson BW.

Int J Proteomics. 2013;2013:791985. doi: 10.1155/2013/791985. Epub 2013 Apr 4.

16.

A new algorithm using cross-assignment for label-free quantitation with LC-LTQ-FT MS.

Andreev VP, Li L, Cao L, Gu Y, Rejtar T, Wu SL, Karger BL.

J Proteome Res. 2007 Jun;6(6):2186-94. Epub 2007 Apr 19.

17.

Whole cell, label free protein quantitation with data independent acquisition: quantitation at the MS2 level.

McQueen P, Spicer V, Schellenberg J, Krokhin O, Sparling R, Levin D, Wilkins JA.

Proteomics. 2015 Jan;15(1):16-24. doi: 10.1002/pmic.201400188. Epub 2014 Dec 10.

PMID:
25348682
18.

Evaluation of Spectral Counting for Relative Quantitation of Proteoforms in Top-Down Proteomics.

Geis-Asteggiante L, Ostrand-Rosenberg S, Fenselau C, Edwards NJ.

Anal Chem. 2016 Nov 15;88(22):10900-10907. Epub 2016 Oct 31.

PMID:
27748581
19.

Statistical characterization of HCD fragmentation patterns of tryptic peptides on an LTQ Orbitrap Velos mass spectrometer.

Shao C, Zhang Y, Sun W.

J Proteomics. 2014 Sep 23;109:26-37. doi: 10.1016/j.jprot.2014.06.012. Epub 2014 Jun 27.

PMID:
24981973
20.

Relative quantification of stable isotope labeled peptides using a linear ion trap-Orbitrap hybrid mass spectrometer.

Venable JD, Wohlschlegel J, McClatchy DB, Park SK, Yates JR 3rd.

Anal Chem. 2007 Apr 15;79(8):3056-64. Epub 2007 Mar 17.

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