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Items: 1 to 50 of 88

1.

Single-Shot Capillary Zone Electrophoresis-Tandem Mass Spectrometry Produces over 4400 Phosphopeptide Identifications from a 220 ng Sample.

Zhang Z, Hebert AS, Westphall MS, Coon JJ, Dovichi NJ.

J Proteome Res. 2019 Aug 2;18(8):3166-3173. doi: 10.1021/acs.jproteome.9b00244. Epub 2019 Jun 26.

PMID:
31180221
2.

Capturing site-specific heterogeneity with large-scale N-glycoproteome analysis.

Riley NM, Hebert AS, Westphall MS, Coon JJ.

Nat Commun. 2019 Mar 21;10(1):1311. doi: 10.1038/s41467-019-09222-w.

4.

Ultra-High Pressure (>30,000 psi) Packing of Capillary Columns Enhancing Depth of Shotgun Proteomic Analyses.

Shishkova E, Hebert AS, Westphall MS, Coon JJ.

Anal Chem. 2018 Oct 2;90(19):11503-11508. doi: 10.1021/acs.analchem.8b02766. Epub 2018 Sep 14.

PMID:
30179449
5.

Comprehensive Single-Shot Proteomics with FAIMS on a Hybrid Orbitrap Mass Spectrometer.

Hebert AS, Prasad S, Belford MW, Bailey DJ, McAlister GC, Abbatiello SE, Huguet R, Wouters ER, Dunyach JJ, Brademan DR, Westphall MS, Coon JJ.

Anal Chem. 2018 Aug 7;90(15):9529-9537. doi: 10.1021/acs.analchem.8b02233. Epub 2018 Jul 18.

6.

Top-Down Characterization of Proteins with Intact Disulfide Bonds Using Activated-Ion Electron Transfer Dissociation.

Rush MJP, Riley NM, Westphall MS, Coon JJ.

Anal Chem. 2018 Aug 7;90(15):8946-8953. doi: 10.1021/acs.analchem.8b01113. Epub 2018 Jul 10.

7.

The Value of Activated Ion Electron Transfer Dissociation for High-Throughput Top-Down Characterization of Intact Proteins.

Riley NM, Sikora JW, Seckler HS, Greer JB, Fellers RT, LeDuc RD, Westphall MS, Thomas PM, Kelleher NL, Coon JJ.

Anal Chem. 2018 Jul 17;90(14):8553-8560. doi: 10.1021/acs.analchem.8b01638. Epub 2018 Jul 5.

8.

Multiplexed proteome analysis with neutron-encoded stable isotope labeling in cells and mice.

Overmyer KA, Tyanova S, Hebert AS, Westphall MS, Cox J, Coon JJ.

Nat Protoc. 2018 Jan;13(1):293-306. doi: 10.1038/nprot.2017.121. Epub 2018 Jan 11.

9.

Improved Precursor Characterization for Data-Dependent Mass Spectrometry.

Hebert AS, Thöing C, Riley NM, Kwiecien NW, Shiskova E, Huguet R, Cardasis HL, Kuehn A, Eliuk S, Zabrouskov V, Westphall MS, McAlister GC, Coon JJ.

Anal Chem. 2018 Feb 6;90(3):2333-2340. doi: 10.1021/acs.analchem.7b04808. Epub 2018 Jan 11.

10.

Sequencing Larger Intact Proteins (30-70 kDa) with Activated Ion Electron Transfer Dissociation.

Riley NM, Westphall MS, Coon JJ.

J Am Soc Mass Spectrom. 2018 Jan;29(1):140-149. doi: 10.1007/s13361-017-1808-7. Epub 2017 Oct 12.

11.

Gender Diversity in a STEM Subfield - Analysis of a Large Scientific Society and Its Annual Conferences.

Shishkova E, Kwiecien NW, Hebert AS, Westphall MS, Prenni JE, Coon JJ.

J Am Soc Mass Spectrom. 2017 Dec;28(12):2523-2531. doi: 10.1007/s13361-017-1803-z. Epub 2017 Sep 26.

12.

Activated Ion-Electron Transfer Dissociation Enables Comprehensive Top-Down Protein Fragmentation.

Riley NM, Westphall MS, Coon JJ.

J Proteome Res. 2017 Jul 7;16(7):2653-2659. doi: 10.1021/acs.jproteome.7b00249. Epub 2017 Jun 19.

13.

Negative Electron Transfer Dissociation Sequencing of Increasingly Sulfated Glycosaminoglycan Oligosaccharides on an Orbitrap Mass Spectrometer.

Leach FE 3rd, Riley NM, Westphall MS, Coon JJ, Amster IJ.

J Am Soc Mass Spectrom. 2017 Sep;28(9):1844-1854. doi: 10.1007/s13361-017-1709-9. Epub 2017 Jun 6.

14.

A map of the phosphoproteomic alterations that occur after a bout of maximal-intensity contractions.

Potts GK, McNally RM, Blanco R, You JS, Hebert AS, Westphall MS, Coon JJ, Hornberger TA.

J Physiol. 2017 Aug 1;595(15):5209-5226. doi: 10.1113/JP273904. Epub 2017 Jul 4. Erratum in: J Physiol. 2019 Feb;597(3):967-968.

15.

Phosphoproteomics with Activated Ion Electron Transfer Dissociation.

Riley NM, Hebert AS, Dürnberger G, Stanek F, Mechtler K, Westphall MS, Coon JJ.

Anal Chem. 2017 Jun 20;89(12):6367-6376. doi: 10.1021/acs.analchem.7b00212. Epub 2017 Apr 17.

16.

Implementation of Activated Ion Electron Transfer Dissociation on a Quadrupole-Orbitrap-Linear Ion Trap Hybrid Mass Spectrometer.

Riley NM, Westphall MS, Hebert AS, Coon JJ.

Anal Chem. 2017 Jun 20;89(12):6358-6366. doi: 10.1021/acs.analchem.7b00213. Epub 2017 Apr 17.

17.

Sulfur Pentafluoride is a Preferred Reagent Cation for Negative Electron Transfer Dissociation.

Rush MJP, Riley NM, Westphall MS, Syka JEP, Coon JJ.

J Am Soc Mass Spectrom. 2017 Jul;28(7):1324-1332. doi: 10.1007/s13361-017-1600-8. Epub 2017 Mar 27.

18.

Identification of the phosphorylation targets of symbiotic receptor-like kinases using a high-throughput multiplexed assay for kinase specificity.

Jayaraman D, Richards AL, Westphall MS, Coon JJ, Ané JM.

Plant J. 2017 Jun;90(6):1196-1207. doi: 10.1111/tpj.13529. Epub 2017 Apr 29.

19.

A proteomic atlas of the legume Medicago truncatula and its nitrogen-fixing endosymbiont Sinorhizobium meliloti.

Marx H, Minogue CE, Jayaraman D, Richards AL, Kwiecien NW, Siahpirani AF, Rajasekar S, Maeda J, Garcia K, Del Valle-Echevarria AR, Volkening JD, Westphall MS, Roy S, Sussman MR, Ané JM, Coon JJ.

Nat Biotechnol. 2016 Nov;34(11):1198-1205. doi: 10.1038/nbt.3681. Epub 2016 Oct 17.

PMID:
27748755
20.

Mitochondrial protein functions elucidated by multi-omic mass spectrometry profiling.

Stefely JA, Kwiecien NW, Freiberger EC, Richards AL, Jochem A, Rush MJP, Ulbrich A, Robinson KP, Hutchins PD, Veling MT, Guo X, Kemmerer ZA, Connors KJ, Trujillo EA, Sokol J, Marx H, Westphall MS, Hebert AS, Pagliarini DJ, Coon JJ.

Nat Biotechnol. 2016 Nov;34(11):1191-1197. doi: 10.1038/nbt.3683. Epub 2016 Sep 26.

21.

Mitochondrial Protein Interaction Mapping Identifies Regulators of Respiratory Chain Function.

Floyd BJ, Wilkerson EM, Veling MT, Minogue CE, Xia C, Beebe ET, Wrobel RL, Cho H, Kremer LS, Alston CL, Gromek KA, Dolan BK, Ulbrich A, Stefely JA, Bohl SL, Werner KM, Jochem A, Westphall MS, Rensvold JW, Taylor RW, Prokisch H, Kim JP, Coon JJ, Pagliarini DJ.

Mol Cell. 2016 Aug 18;63(4):621-632. doi: 10.1016/j.molcel.2016.06.033. Epub 2016 Aug 4.

22.

Cerebellar Ataxia and Coenzyme Q Deficiency through Loss of Unorthodox Kinase Activity.

Stefely JA, Licitra F, Laredj L, Reidenbach AG, Kemmerer ZA, Grangeray A, Jaeg-Ehret T, Minogue CE, Ulbrich A, Hutchins PD, Wilkerson EM, Ruan Z, Aydin D, Hebert AS, Guo X, Freiberger EC, Reutenauer L, Jochem A, Chergova M, Johnson IE, Lohman DC, Rush MJP, Kwiecien NW, Singh PK, Schlagowski AI, Floyd BJ, Forsman U, Sindelar PJ, Westphall MS, Pierrel F, Zoll J, Dal Peraro M, Kannan N, Bingman CA, Coon JJ, Isope P, Puccio H, Pagliarini DJ.

Mol Cell. 2016 Aug 18;63(4):608-620. doi: 10.1016/j.molcel.2016.06.030. Epub 2016 Aug 4.

23.

Full-Featured Search Algorithm for Negative Electron-Transfer Dissociation.

Riley NM, Bern M, Westphall MS, Coon JJ.

J Proteome Res. 2016 Aug 5;15(8):2768-76. doi: 10.1021/acs.jproteome.6b00319. Epub 2016 Jul 22.

24.

NeuCode Proteomics Reveals Bap1 Regulation of Metabolism.

Baughman JM, Rose CM, Kolumam G, Webster JD, Wilkerson EM, Merrill AE, Rhoads TW, Noubade R, Katavolos P, Lesch J, Stapleton DS, Rabaglia ME, Schueler KL, Asuncion R, Domeyer M, Zavala-Solorio J, Reich M, DeVoss J, Keller MP, Attie AD, Hebert AS, Westphall MS, Coon JJ, Kirkpatrick DS, Dey A.

Cell Rep. 2016 Jul 12;16(2):583-595. doi: 10.1016/j.celrep.2016.05.096. Epub 2016 Jun 30.

25.

The Peripheral Blood Eosinophil Proteome.

Wilkerson EM, Johansson MW, Hebert AS, Westphall MS, Mathur SK, Jarjour NN, Schwantes EA, Mosher DF, Coon JJ.

J Proteome Res. 2016 May 6;15(5):1524-33. doi: 10.1021/acs.jproteome.6b00006. Epub 2016 Apr 1.

26.

Neucode Labels for Multiplexed, Absolute Protein Quantification.

Potts GK, Voigt EA, Bailey DJ, Rose CM, Westphall MS, Hebert AS, Yin J, Coon JJ.

Anal Chem. 2016 Mar 15;88(6):3295-303. doi: 10.1021/acs.analchem.5b04773. Epub 2016 Feb 25.

27.

Enhanced Dissociation of Intact Proteins with High Capacity Electron Transfer Dissociation.

Riley NM, Mullen C, Weisbrod CR, Sharma S, Senko MW, Zabrouskov V, Westphall MS, Syka JE, Coon JJ.

J Am Soc Mass Spectrom. 2016 Mar;27(3):520-31. doi: 10.1007/s13361-015-1306-8. Epub 2015 Nov 20.

28.

NeuCode Labeling in Nematodes: Proteomic and Phosphoproteomic Impact of Ascaroside Treatment in Caenorhabditis elegans.

Rhoads TW, Prasad A, Kwiecien NW, Merrill AE, Zawack K, Westphall MS, Schroeder FC, Kimble J, Coon JJ.

Mol Cell Proteomics. 2015 Nov;14(11):2922-35. doi: 10.1074/mcp.M115.049684. Epub 2015 Sep 21.

29.

The Negative Mode Proteome with Activated Ion Negative Electron Transfer Dissociation (AI-NETD).

Riley NM, Rush MJ, Rose CM, Richards AL, Kwiecien NW, Bailey DJ, Hebert AS, Westphall MS, Coon JJ.

Mol Cell Proteomics. 2015 Oct;14(10):2644-60. doi: 10.1074/mcp.M115.049726. Epub 2015 Jul 20.

30.

High-resolution filtering for improved small molecule identification via GC/MS.

Kwiecien NW, Bailey DJ, Rush MJ, Cole JS, Ulbrich A, Hebert AS, Westphall MS, Coon JJ.

Anal Chem. 2015 Aug 18;87(16):8328-35. doi: 10.1021/acs.analchem.5b01503. Epub 2015 Aug 7.

31.

Potential regulatory phosphorylation sites in a Medicago truncatula plasma membrane proton pump implicated during early symbiotic signaling in roots.

Nguyen TT, Volkening JD, Rose CM, Venkateshwaran M, Westphall MS, Coon JJ, Ané JM, Sussman MR.

FEBS Lett. 2015 Aug 4;589(17):2186-93. doi: 10.1016/j.febslet.2015.06.035. Epub 2015 Jul 17.

32.

A calibration routine for efficient ETD in large-scale proteomics.

Rose CM, Rush MJ, Riley NM, Merrill AE, Kwiecien NW, Holden DD, Mullen C, Westphall MS, Coon JJ.

J Am Soc Mass Spectrom. 2015 Nov;26(11):1848-57. doi: 10.1007/s13361-015-1183-1. Epub 2015 Jun 26.

33.

Activated Ion Electron Transfer Dissociation for Improved Fragmentation of Intact Proteins.

Riley NM, Westphall MS, Coon JJ.

Anal Chem. 2015 Jul 21;87(14):7109-16. doi: 10.1021/acs.analchem.5b00881. Epub 2015 Jun 26.

PMID:
26067513
34.

Coupling capillary zone electrophoresis with electron transfer dissociation and activated ion electron transfer dissociation for top-down proteomics.

Zhao Y, Riley NM, Sun L, Hebert AS, Yan X, Westphall MS, Rush MJ, Zhu G, Champion MM, Mba Medie F, Champion PA, Coon JJ, Dovichi NJ.

Anal Chem. 2015;87(10):5422-9. doi: 10.1021/acs.analchem.5b00883. Epub 2015 May 6.

35.

One-hour proteome analysis in yeast.

Richards AL, Hebert AS, Ulbrich A, Bailey DJ, Coughlin EE, Westphall MS, Coon JJ.

Nat Protoc. 2015 May;10(5):701-14. doi: 10.1038/nprot.2015.040. Epub 2015 Apr 9.

36.

Multiplexed quantification for data-independent acquisition.

Minogue CE, Hebert AS, Rensvold JW, Westphall MS, Pagliarini DJ, Coon JJ.

Anal Chem. 2015 Mar 3;87(5):2570-5. doi: 10.1021/ac503593d. Epub 2015 Feb 11.

37.

Over 10,000 peptide identifications from the HeLa proteome by using single-shot capillary zone electrophoresis combined with tandem mass spectrometry.

Sun L, Hebert AS, Yan X, Zhao Y, Westphall MS, Rush MJ, Zhu G, Champion MM, Coon JJ, Dovichi NJ.

Angew Chem Int Ed Engl. 2014 Dec 8;53(50):13931-3. doi: 10.1002/anie.201409075. Epub 2014 Oct 24.

38.

Mitochondrial COQ9 is a lipid-binding protein that associates with COQ7 to enable coenzyme Q biosynthesis.

Lohman DC, Forouhar F, Beebe ET, Stefely MS, Minogue CE, Ulbrich A, Stefely JA, Sukumar S, Luna-Sánchez M, Jochem A, Lew S, Seetharaman J, Xiao R, Wang H, Westphall MS, Wrobel RL, Everett JK, Mitchell JC, López LC, Coon JJ, Tong L, Pagliarini DJ.

Proc Natl Acad Sci U S A. 2014 Nov 4;111(44):E4697-705. doi: 10.1073/pnas.1413128111. Epub 2014 Oct 22.

39.

Engineering and two-stage evolution of a lignocellulosic hydrolysate-tolerant Saccharomyces cerevisiae strain for anaerobic fermentation of xylose from AFEX pretreated corn stover.

Parreiras LS, Breuer RJ, Avanasi Narasimhan R, Higbee AJ, La Reau A, Tremaine M, Qin L, Willis LB, Bice BD, Bonfert BL, Pinhancos RC, Balloon AJ, Uppugundla N, Liu T, Li C, Tanjore D, Ong IM, Li H, Pohlmann EL, Serate J, Withers ST, Simmons BA, Hodge DB, Westphall MS, Coon JJ, Dale BE, Balan V, Keating DH, Zhang Y, Landick R, Gasch AP, Sato TK.

PLoS One. 2014 Sep 15;9(9):e107499. doi: 10.1371/journal.pone.0107499. eCollection 2014.

40.

Development of a GC/Quadrupole-Orbitrap mass spectrometer, part I: design and characterization.

Peterson AC, Hauschild JP, Quarmby ST, Krumwiede D, Lange O, Lemke RA, Grosse-Coosmann F, Horning S, Donohue TJ, Westphall MS, Coon JJ, Griep-Raming J.

Anal Chem. 2014 Oct 21;86(20):10036-43. doi: 10.1021/ac5014767. Epub 2014 Sep 10.

41.

Aromatic inhibitors derived from ammonia-pretreated lignocellulose hinder bacterial ethanologenesis by activating regulatory circuits controlling inhibitor efflux and detoxification.

Keating DH, Zhang Y, Ong IM, McIlwain S, Morales EH, Grass JA, Tremaine M, Bothfeld W, Higbee A, Ulbrich A, Balloon AJ, Westphall MS, Aldrich J, Lipton MS, Kim J, Moskvin OV, Bukhman YV, Coon JJ, Kiley PJ, Bates DM, Landick R.

Front Microbiol. 2014 Aug 13;5:402. doi: 10.3389/fmicb.2014.00402. eCollection 2014.

42.

Development of a GC/Quadrupole-Orbitrap mass spectrometer, part II: new approaches for discovery metabolomics.

Peterson AC, Balloon AJ, Westphall MS, Coon JJ.

Anal Chem. 2014 Oct 21;86(20):10044-51. doi: 10.1021/ac5014755. Epub 2014 Sep 10.

43.

Synthesis and scavenging role of furan fatty acids.

Lemke RA, Peterson AC, Ziegelhoffer EC, Westphall MS, Tjellström H, Coon JJ, Donohue TJ.

Proc Natl Acad Sci U S A. 2014 Aug 19;111(33):E3450-7. doi: 10.1073/pnas.1405520111. Epub 2014 Aug 4.

44.

NeuCode labels for relative protein quantification.

Merrill AE, Hebert AS, MacGilvray ME, Rose CM, Bailey DJ, Bradley JC, Wood WW, El Masri M, Westphall MS, Gasch AP, Coon JJ.

Mol Cell Proteomics. 2014 Sep;13(9):2503-12. doi: 10.1074/mcp.M114.040287. Epub 2014 Jun 17.

45.

Organic acid quantitation by NeuCode methylamidation.

Ulbrich A, Bailey DJ, Westphall MS, Coon JJ.

Anal Chem. 2014 May 6;86(9):4402-8. doi: 10.1021/ac500270q. Epub 2014 Apr 11.

PMID:
24684282
46.

NANOG is multiply phosphorylated and directly modified by ERK2 and CDK1 in vitro.

Brumbaugh J, Russell JD, Yu P, Westphall MS, Coon JJ, Thomson JA.

Stem Cell Reports. 2014 Jan 14;2(1):18-25. doi: 10.1016/j.stemcr.2013.12.005. eCollection 2014 Jan 14.

47.

Intelligent data acquisition blends targeted and discovery methods.

Bailey DJ, McDevitt MT, Westphall MS, Pagliarini DJ, Coon JJ.

J Proteome Res. 2014 Apr 4;13(4):2152-61. doi: 10.1021/pr401278j. Epub 2014 Mar 18.

48.

Neutron-encoded mass signatures for quantitative top-down proteomics.

Rhoads TW, Rose CM, Bailey DJ, Riley NM, Molden RC, Nestler AJ, Merrill AE, Smith LM, Hebert AS, Westphall MS, Pagliarini DJ, Garcia BA, Coon JJ.

Anal Chem. 2014 Mar 4;86(5):2314-9. doi: 10.1021/ac403579s. Epub 2014 Feb 19.

49.

Neutron-encoded protein quantification by peptide carbamylation.

Ulbrich A, Merrill AE, Hebert AS, Westphall MS, Keller MP, Attie AD, Coon JJ.

J Am Soc Mass Spectrom. 2014 Jan;25(1):6-9. doi: 10.1007/s13361-013-0765-z. Epub 2013 Oct 29.

50.

The one hour yeast proteome.

Hebert AS, Richards AL, Bailey DJ, Ulbrich A, Coughlin EE, Westphall MS, Coon JJ.

Mol Cell Proteomics. 2014 Jan;13(1):339-47. doi: 10.1074/mcp.M113.034769. Epub 2013 Oct 19.

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