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Items: 41

1.

Mixture designs to investigate adverse effects upon co-exposure to environmental cyanotoxins.

Martin RM, Stallrich J, Bereman MS.

Toxicology. 2019 Jun 1;421:74-83. doi: 10.1016/j.tox.2019.04.013. Epub 2019 Apr 25.

PMID:
31029734
2.

Machine Learning Reveals Protein Signatures in CSF and Plasma Fluids of Clinical Value for ALS.

Bereman MS, Beri J, Enders JR, Nash T.

Sci Rep. 2018 Nov 5;8(1):16334. doi: 10.1038/s41598-018-34642-x.

3.

A novel integrated strategy for the detection and quantification of the neurotoxin β-N-methylamino-L-alanine in environmental samples.

Beri J, Kirkwood KI, Muddiman DC, Bereman MS.

Anal Bioanal Chem. 2018 Apr;410(10):2597-2605. doi: 10.1007/s00216-018-0930-0. Epub 2018 Feb 17.

PMID:
29455280
4.

Exposure to BMAA mirrors molecular processes linked to neurodegenerative disease.

Beri J, Nash T, Martin RM, Bereman MS.

Proteomics. 2017 Sep;17(17-18). doi: 10.1002/pmic.201700161. Epub 2017 Aug 24.

5.

Evaluation of a Bead-Free Coimmunoprecipitation Technique for Identification of Virus-Host Protein Interactions Using High-Resolution Mass Spectrometry.

DeBlasio SL, Bereman MS, Mahoney J, Thannhauser TW, Gray SM, MacCoss MJ, Cilia Heck M.

J Biomol Tech. 2017 Sep;28(3):111-121. doi: 10.7171/jbt.17-2803-002. Epub 2017 Jul 24.

6.

Acetylation-induced TDP-43 pathology is suppressed by an HSF1-dependent chaperone program.

Wang P, Wander CM, Yuan CX, Bereman MS, Cohen TJ.

Nat Commun. 2017 Jul 19;8(1):82. doi: 10.1038/s41467-017-00088-4.

7.

MSstatsQC: Longitudinal System Suitability Monitoring and Quality Control for Targeted Proteomic Experiments.

Dogu E, Mohammad-Taheri S, Abbatiello SE, Bereman MS, MacLean B, Schilling B, Vitek O.

Mol Cell Proteomics. 2017 Jul;16(7):1335-1347. doi: 10.1074/mcp.M116.064774. Epub 2017 May 8.

8.

Mapping differential cellular protein response of mouse alveolar epithelial cells to multi-walled carbon nanotubes as a function of atomic layer deposition coating.

Hilton GM, Taylor AJ, Hussain S, Dandley EC, Griffith EH, Garantziotis S, Parsons GN, Bonner JC, Bereman MS.

Nanotoxicology. 2017 Apr;11(3):313-326. doi: 10.1080/17435390.2017.1299888. Epub 2017 Mar 13.

9.

An Automated Pipeline to Monitor System Performance in Liquid Chromatography-Tandem Mass Spectrometry Proteomic Experiments.

Bereman MS, Beri J, Sharma V, Nathe C, Eckels J, MacLean B, MacCoss MJ.

J Proteome Res. 2016 Dec 2;15(12):4763-4769. Epub 2016 Oct 4.

10.

Improving the analytical performance and versatility of paper spray mass spectrometry via paper microfluidics.

Murray I, Walker G, Bereman MS.

Analyst. 2016 Jun 20;141(13):4065-73. doi: 10.1039/c6an00649c.

PMID:
27138343
11.

Reagent for Evaluating Liquid Chromatography-Tandem Mass Spectrometry (LC-MS/MS) Performance in Bottom-Up Proteomic Experiments.

Beri J, Rosenblatt MM, Strauss E, Urh M, Bereman MS.

Anal Chem. 2015 Dec 1;87(23):11635-40. doi: 10.1021/acs.analchem.5b04121. Epub 2015 Nov 10.

PMID:
26537636
12.

Data-independent-acquisition mass spectrometry for identification of targeted-peptide site-specific modifications.

Porter CJ, Bereman MS.

Anal Bioanal Chem. 2015 Sep;407(22):6627-35. doi: 10.1007/s00216-015-8819-7. Epub 2015 Jun 24.

13.

Toxicoproteomic analysis of pulmonary carbon nanotube exposure using LC-MS/MS.

Hilton GM, Taylor AJ, McClure CD, Parsons GN, Bonner JC, Bereman MS.

Toxicology. 2015 Mar 2;329:80-7. doi: 10.1016/j.tox.2015.01.011. Epub 2015 Jan 15.

14.

C/EBPα regulates CRL4(Cdt2)-mediated degradation of p21 in response to UVB-induced DNA damage to control the G1/S checkpoint.

Hall JR, Bereman MS, Nepomuceno AI, Thompson EA, Muddiman DC, Smart RC.

Cell Cycle. 2014;13(22):3602-10. doi: 10.4161/15384101.2014.962957.

15.

Tools for monitoring system suitability in LC MS/MS centric proteomic experiments.

Bereman MS.

Proteomics. 2015 Mar;15(5-6):891-902. doi: 10.1002/pmic.201400373. Epub 2014 Dec 23. Review.

PMID:
25327420
16.

Evidence of the biochemical basis of host virulence in the greenbug aphid, Schizaphis graminum (Homoptera: Aphididae).

Pinheiro P, Bereman MS, Burd J, Pals M, Armstrong S, Howe KJ, Thannhauser TW, MacCoss MJ, Gray SM, Cilia M.

J Proteome Res. 2014 Apr 4;13(4):2094-108. doi: 10.1021/pr4012415. Epub 2014 Mar 18.

PMID:
24588548
17.

Implementation of statistical process control for proteomic experiments via LC MS/MS.

Bereman MS, Johnson R, Bollinger J, Boss Y, Shulman N, MacLean B, Hoofnagle AN, MacCoss MJ.

J Am Soc Mass Spectrom. 2014 Apr;25(4):581-7. doi: 10.1007/s13361-013-0824-5. Epub 2014 Feb 5.

18.

Genomic and proteomic analysis of Schizaphis graminum reveals cyclophilin proteins are involved in the transmission of cereal yellow dwarf virus.

Tamborindeguy C, Bereman MS, DeBlasio S, Igwe D, Smith DM, White F, MacCoss MJ, Gray SM, Cilia M.

PLoS One. 2013 Aug 9;8(8):e71620. doi: 10.1371/journal.pone.0071620. eCollection 2013.

19.

Development and characterization of a novel plug and play liquid chromatography-mass spectrometry (LC-MS) source that automates connections between the capillary trap, column, and emitter.

Bereman MS, Hsieh EJ, Corso TN, Van Pelt CK, Maccoss MJ.

Mol Cell Proteomics. 2013 Jun;12(6):1701-8. doi: 10.1074/mcp.O112.024893. Epub 2013 Feb 19.

20.

Effects of column and gradient lengths on peak capacity and peptide identification in nanoflow LC-MS/MS of complex proteomic samples.

Hsieh EJ, Bereman MS, Durand S, Valaskovic GA, MacCoss MJ.

J Am Soc Mass Spectrom. 2013 Jan;24(1):148-53. doi: 10.1007/s13361-012-0508-6. Epub 2012 Nov 30.

21.

Estimating relative abundances of proteins from shotgun proteomics data.

McIlwain S, Mathews M, Bereman MS, Rubel EW, MacCoss MJ, Noble WS.

BMC Bioinformatics. 2012 Nov 19;13:308. doi: 10.1186/1471-2105-13-308.

22.

Discovery and targeted LC-MS/MS of purified polerovirus reveals differences in the virus-host interactome associated with altered aphid transmission.

Cilia M, Peter KA, Bereman MS, Howe K, Fish T, Smith D, Gildow F, MacCoss MJ, Thannhauser TW, Gray SM.

PLoS One. 2012;7(10):e48177. doi: 10.1371/journal.pone.0048177. Epub 2012 Oct 30.

23.

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.

24.

Learning score function parameters for improved spectrum identification in tandem mass spectrometry experiments.

Spivak M, Bereman MS, Maccoss MJ, Noble WS.

J Proteome Res. 2012 Sep 7;11(9):4499-508. doi: 10.1021/pr300234m. Epub 2012 Aug 15.

25.

The development of selected reaction monitoring methods for targeted proteomics via empirical refinement.

Bereman MS, MacLean B, Tomazela DM, Liebler DC, MacCoss MJ.

Proteomics. 2012 Apr;12(8):1134-41. doi: 10.1002/pmic.201200042. Review.

26.

A method to determine the kinetics of multiple proteins in human infants with respiratory distress syndrome.

Bereman MS, Tomazela DM, Heins HS, Simonato M, Cogo PE, Hamvas A, Patterson BW, Cole FS, MacCoss MJ.

Anal Bioanal Chem. 2012 Jun;403(8):2397-402. doi: 10.1007/s00216-012-5953-3. Epub 2012 Apr 14.

27.

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.

28.

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.

29.

Garrod's fourth inborn error of metabolism solved by the identification of mutations causing pentosuria.

Pierce SB, Spurrell CH, Mandell JB, Lee MK, Zeligson S, Bereman MS, Stray SM, Fokstuen S, MacCoss MJ, Levy-Lahad E, King MC, Motulsky AG.

Proc Natl Acad Sci U S A. 2011 Nov 8;108(45):18313-7. doi: 10.1073/pnas.1115888108. Epub 2011 Oct 31.

30.

N-linked global glycan profiling by nanoLC mass spectrometry.

Bereman MS, Muddiman DC.

Methods Mol Biol. 2011;790:87-97. doi: 10.1007/978-1-61779-319-6_7.

PMID:
21948408
31.

One-Year Plasma N-linked Glycome Intra-individual and Inter-individual Variability in the Chicken Model of Spontaneous Ovarian Adenocarcinoma.

Dixon RB, Bereman MS, Petitte JN, Hawkridge AM, Muddiman DC.

Int J Mass Spectrom. 2011 Aug 15;305(2-3):79-86.

32.

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.

33.

The effects of abundant plasma protein depletion on global glycan profiling using nanoLC FT-ICR mass spectrometry.

Bereman MS, Muddiman DC.

Anal Bioanal Chem. 2010 Feb;396(4):1473-9. doi: 10.1007/s00216-009-3368-6. Epub 2010 Jan 20.

34.

Increasing the hydrophobicity and electrospray response of glycans through derivatization with novel cationic hydrazides.

Bereman MS, Comins DL, Muddiman DC.

Chem Commun (Camb). 2010 Jan 14;46(2):237-9. doi: 10.1039/b915589a. Epub 2009 Nov 17.

PMID:
20024337
35.

Development of a robust and high throughput method for profiling N-linked glycans derived from plasma glycoproteins by NanoLC-FTICR mass spectrometry.

Bereman MS, Young DD, Deiters A, Muddiman DC.

J Proteome Res. 2009 Jul;8(7):3764-70. doi: 10.1021/pr9002323.

37.

Mass measurement accuracy comparisons between a double-focusing magnetic sector and a time-of-flight mass analyzer.

Bereman MS, Lyndon MM, Dixon RB, Muddiman DC.

Rapid Commun Mass Spectrom. 2008 May;22(10):1563-6. doi: 10.1002/rcm.3544.

PMID:
18421754
38.

Carbohydrate analysis by desorption electrospray ionization fourier transform ion cyclotron resonance mass spectrometry.

Bereman MS, Williams TI, Muddiman DC.

Anal Chem. 2007 Nov 15;79(22):8812-5. Epub 2007 Oct 6.

PMID:
17918969
39.

Remote mass spectrometric sampling of electrospray- and desorption electrospray-generated ions using an air ejector.

Dixon RB, Bereman MS, Muddiman DC, Hawkridge AM.

J Am Soc Mass Spectrom. 2007 Oct;18(10):1844-7. Epub 2007 Jul 29.

40.
41.

Direct high-resolution peptide and protein analysis by desorption electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry.

Bereman MS, Nyadong L, Fernandez FM, Muddiman DC.

Rapid Commun Mass Spectrom. 2006;20(22):3409-11.

PMID:
17051610

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