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Items: 18

1.

Improving mitochondrial function with SS-31 reverses age-related redox stress and improves exercise tolerance in aged mice.

Campbell MD, Duan J, Samuelson AT, Gaffrey MJ, Merrihew GE, Egertson JD, Wang L, Bammler TK, Moore RJ, White CC, Kavanagh TJ, Voss JG, Szeto HH, Rabinovitch PS, MacCoss MJ, Qian WJ, Marcinek DJ.

Free Radic Biol Med. 2018 Dec 28;134:268-281. doi: 10.1016/j.freeradbiomed.2018.12.031. [Epub ahead of print]

PMID:
30597195
2.

Chromatogram libraries improve peptide detection and quantification by data independent acquisition mass spectrometry.

Searle BC, Pino LK, Egertson JD, Ting YS, Lawrence RT, MacLean BX, Villén J, MacCoss MJ.

Nat Commun. 2018 Dec 3;9(1):5128. doi: 10.1038/s41467-018-07454-w.

3.

Data-Independent Acquisition Mass Spectrometry To Quantify Protein Levels in FFPE Tumor Biopsies for Molecular Diagnostics.

Kim YJ, Sweet SMM, Egertson JD, Sedgewick AJ, Woo S, Liao WL, Merrihew GE, Searle BC, Vaske C, Heaton R, MacCoss MJ, Hembrough T.

J Proteome Res. 2019 Jan 4;18(1):426-435. doi: 10.1021/acs.jproteome.8b00699. Epub 2018 Dec 12.

PMID:
30481034
4.

Using Skyline to Analyze Data-Containing Liquid Chromatography, Ion Mobility Spectrometry, and Mass Spectrometry Dimensions.

MacLean BX, Pratt BS, Egertson JD, MacCoss MJ, Smith RD, Baker ES.

J Am Soc Mass Spectrom. 2018 Nov;29(11):2182-2188. doi: 10.1007/s13361-018-2028-5. Epub 2018 Jul 25.

PMID:
30047074
5.

A Library of Phosphoproteomic and Chromatin Signatures for Characterizing Cellular Responses to Drug Perturbations.

Litichevskiy L, Peckner R, Abelin JG, Asiedu JK, Creech AL, Davis JF, Davison D, Dunning CM, Egertson JD, Egri S, Gould J, Ko T, Johnson SA, Lahr DL, Lam D, Liu Z, Lyons NJ, Lu X, MacLean BX, Mungenast AE, Officer A, Natoli TE, Papanastasiou M, Patel J, Sharma V, Toder C, Tubelli AA, Young JZ, Carr SA, Golub TR, Subramanian A, MacCoss MJ, Tsai LH, Jaffe JD.

Cell Syst. 2018 Apr 25;6(4):424-443.e7. doi: 10.1016/j.cels.2018.03.012. Epub 2018 Apr 11.

6.

Specter: linear deconvolution for targeted analysis of data-independent acquisition mass spectrometry proteomics.

Peckner R, Myers SA, Jacome ASV, Egertson JD, Abelin JG, MacCoss MJ, Carr SA, Jaffe JD.

Nat Methods. 2018 May;15(5):371-378. doi: 10.1038/nmeth.4643. Epub 2018 Apr 2.

7.

Nonlinear Regression Improves Accuracy of Characterization of Multiplexed Mass Spectrometric Assays.

Galitzine C, Egertson JD, Abbatiello S, Henderson CM, Pino LK, MacCoss M, Hoofnagle AN, Vitek O.

Mol Cell Proteomics. 2018 May;17(5):913-924. doi: 10.1074/mcp.RA117.000322. Epub 2018 Feb 9.

8.

PECAN: library-free peptide detection for data-independent acquisition tandem mass spectrometry data.

Ting YS, Egertson JD, Bollinger JG, Searle BC, Payne SH, Noble WS, MacCoss MJ.

Nat Methods. 2017 Sep;14(9):903-908. doi: 10.1038/nmeth.4390. Epub 2017 Aug 7.

9.

Selecting Optimal Peptides for Targeted Proteomic Experiments in Human Plasma Using In Vitro Synthesized Proteins as Analytical Standards.

Bollinger JG, Stergachis AB, Johnson RS, Egertson JD, MacCoss MJ.

Methods Mol Biol. 2016;1410:207-21. doi: 10.1007/978-1-4939-3524-6_12.

10.

Peptide-Centric Proteome Analysis: An Alternative Strategy for the Analysis of Tandem Mass Spectrometry Data.

Ting YS, Egertson JD, Payne SH, Kim S, MacLean B, Käll L, Aebersold R, Smith RD, Noble WS, MacCoss MJ.

Mol Cell Proteomics. 2015 Sep;14(9):2301-7. doi: 10.1074/mcp.O114.047035. Epub 2015 Jul 27.

11.

A deeper look into Comet--implementation and features.

Eng JK, Hoopmann MR, Jahan TA, Egertson JD, Noble WS, MacCoss MJ.

J Am Soc Mass Spectrom. 2015 Nov;26(11):1865-74. doi: 10.1007/s13361-015-1179-x. Epub 2015 Jun 27.

12.

Using Data Independent Acquisition (DIA) to Model High-responding Peptides for Targeted Proteomics Experiments.

Searle BC, Egertson JD, Bollinger JG, Stergachis AB, MacCoss MJ.

Mol Cell Proteomics. 2015 Sep;14(9):2331-40. doi: 10.1074/mcp.M115.051300. Epub 2015 Jun 22.

13.

Multiplexed peptide analysis using data-independent acquisition and Skyline.

Egertson JD, MacLean B, Johnson R, Xuan Y, MacCoss MJ.

Nat Protoc. 2015 Jun;10(6):887-903. doi: 10.1038/nprot.2015.055. Epub 2015 May 21.

14.

Multiplexed MS/MS for improved data-independent acquisition.

Egertson JD, Kuehn A, Merrihew GE, Bateman NW, MacLean BX, Ting YS, Canterbury JD, Marsh DM, Kellmann M, Zabrouskov V, Wu CC, MacCoss MJ.

Nat Methods. 2013 Aug;10(8):744-6. doi: 10.1038/nmeth.2528. Epub 2013 Jun 23.

15.

Multiplex targeted sequencing identifies recurrently mutated genes in autism spectrum disorders.

O'Roak BJ, Vives L, Fu W, Egertson JD, Stanaway IB, Phelps IG, Carvill G, Kumar A, Lee C, Ankenman K, Munson J, Hiatt JB, Turner EH, Levy R, O'Day DR, Krumm N, Coe BP, Martin BK, Borenstein E, Nickerson DA, Mefford HC, Doherty D, Akey JM, Bernier R, Eichler EE, Shendure J.

Science. 2012 Dec 21;338(6114):1619-22. doi: 10.1126/science.1227764. Epub 2012 Nov 15.

16.

De novo correction of mass measurement error in low resolution tandem MS spectra for shotgun proteomics.

Egertson JD, Eng JK, Bereman MS, Hsieh EJ, Merrihew GE, MacCoss MJ.

J Am Soc Mass Spectrom. 2012 Dec;23(12):2075-82. doi: 10.1007/s13361-012-0482-z. Epub 2012 Sep 25.

17.

Evaluation of front-end higher energy collision-induced dissociation on a benchtop dual-pressure linear ion trap mass spectrometer for shotgun proteomics.

Bereman MS, Canterbury JD, Egertson JD, Horner J, Remes PM, Schwartz J, Zabrouskov V, MacCoss MJ.

Anal Chem. 2012 Feb 7;84(3):1533-9. doi: 10.1021/ac203210a. Epub 2012 Jan 12.

18.

Comparison between procedures using SDS for shotgun proteomic analyses of complex samples.

Bereman MS, Egertson JD, MacCoss MJ.

Proteomics. 2011 Jul;11(14):2931-5. doi: 10.1002/pmic.201100045. Epub 2011 Jun 8.

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