Mendoza L - Search Results

1

Trans-Proteomic Pipeline supports and improves analysis of electron transfer dissociation data sets.

Deutsch EW, Shteynberg D, Lam H, Sun Z, Eng JK, Carapito C, von Haller PD, Tasman N, Mendoza L, Farrah T, Aebersold R. Deutsch EW, et al. Among authors: mendoza l. Proteomics. 2010 Mar;10(6):1190-5. doi: 10.1002/pmic.200900567. Proteomics. 2010. PMID: 20082347 Free PMC article.

2

MaRiMba: a software application for spectral library-based MRM transition list assembly.

Sherwood CA, Eastham A, Lee LW, Peterson A, Eng JK, Shteynberg D, Mendoza L, Deutsch EW, Risler J, Tasman N, Aebersold R, Lam H, Martin DB. Sherwood CA, et al. Among authors: mendoza l. J Proteome Res. 2009 Oct;8(10):4396-405. doi: 10.1021/pr900010h. J Proteome Res. 2009. PMID: 19603829 Free PMC article.

3

A guided tour of the Trans-Proteomic Pipeline.

Deutsch EW, Mendoza L, Shteynberg D, Farrah T, Lam H, Tasman N, Sun Z, Nilsson E, Pratt B, Prazen B, Eng JK, Martin DB, Nesvizhskii AI, Aebersold R. Deutsch EW, et al. Among authors: mendoza l. Proteomics. 2010 Mar;10(6):1150-9. doi: 10.1002/pmic.200900375. Proteomics. 2010. PMID: 20101611 Free PMC article. Review.

4

iProphet: multi-level integrative analysis of shotgun proteomic data improves peptide and protein identification rates and error estimates.

Shteynberg D, Deutsch EW, Lam H, Eng JK, Sun Z, Tasman N, Mendoza L, Moritz RL, Aebersold R, Nesvizhskii AI. Shteynberg D, et al. Among authors: mendoza l. Mol Cell Proteomics. 2011 Dec;10(12):M111.007690. doi: 10.1074/mcp.M111.007690. Epub 2011 Aug 29. Mol Cell Proteomics. 2011. PMID: 21876204 Free PMC article.

5

TraML--a standard format for exchange of selected reaction monitoring transition lists.

Deutsch EW, Chambers M, Neumann S, Levander F, Binz PA, Shofstahl J, Campbell DS, Mendoza L, Ovelleiro D, Helsens K, Martens L, Aebersold R, Moritz RL, Brusniak MY. Deutsch EW, et al. Among authors: mendoza l. Mol Cell Proteomics. 2012 Apr;11(4):R111.015040. doi: 10.1074/mcp.R111.015040. Epub 2011 Dec 12. Mol Cell Proteomics. 2012. PMID: 22159873 Free PMC article.

6

PASSEL: the PeptideAtlas SRMexperiment library.

Farrah T, Deutsch EW, Kreisberg R, Sun Z, Campbell DS, Mendoza L, Kusebauch U, Brusniak MY, Hüttenhain R, Schiess R, Selevsek N, Aebersold R, Moritz RL. Farrah T, et al. Among authors: mendoza l. Proteomics. 2012 Apr;12(8):1170-5. doi: 10.1002/pmic.201100515. Proteomics. 2012. PMID: 22318887 Free PMC article.

7

Processing shotgun proteomics data on the Amazon cloud with the trans-proteomic pipeline.

Slagel J, Mendoza L, Shteynberg D, Deutsch EW, Moritz RL. Slagel J, et al. Among authors: mendoza l. Mol Cell Proteomics. 2015 Feb;14(2):399-404. doi: 10.1074/mcp.O114.043380. Epub 2014 Nov 23. Mol Cell Proteomics. 2015. PMID: 25418363 Free PMC article.

8

Trans-Proteomic Pipeline, a standardized data processing pipeline for large-scale reproducible proteomics informatics.

Deutsch EW, Mendoza L, Shteynberg D, Slagel J, Sun Z, Moritz RL. Deutsch EW, et al. Among authors: mendoza l. Proteomics Clin Appl. 2015 Aug;9(7-8):745-54. doi: 10.1002/prca.201400164. Epub 2015 Apr 2. Proteomics Clin Appl. 2015. PMID: 25631240 Free PMC article. Review.

9

State of the Human Proteome in 2014/2015 As Viewed through PeptideAtlas: Enhancing Accuracy and Coverage through the AtlasProphet.

Deutsch EW, Sun Z, Campbell D, Kusebauch U, Chu CS, Mendoza L, Shteynberg D, Omenn GS, Moritz RL. Deutsch EW, et al. Among authors: mendoza l. J Proteome Res. 2015 Sep 4;14(9):3461-73. doi: 10.1021/acs.jproteome.5b00500. Epub 2015 Jul 24. J Proteome Res. 2015. PMID: 26139527 Free PMC article.

10

reSpect: software for identification of high and low abundance ion species in chimeric tandem mass spectra.

Shteynberg D, Mendoza L, Hoopmann MR, Sun Z, Schmidt F, Deutsch EW, Moritz RL. Shteynberg D, et al. Among authors: mendoza l. J Am Soc Mass Spectrom. 2015 Nov;26(11):1837-47. doi: 10.1007/s13361-015-1252-5. Epub 2015 Sep 29. J Am Soc Mass Spectrom. 2015. PMID: 26419769 Free PMC article.

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