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Items: 1 to 50 of 212

1.

Rapid and Comprehensive Single Shot Proteomics with LC-FAIMS-MS/MS.

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 Jul 3. doi: 10.1021/acs.analchem.8b02233. [Epub ahead of print]

PMID:
29969236
2.

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 Jul 10. doi: 10.1021/acs.analchem.8b01113. [Epub ahead of print]

PMID:
29949341
3.

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 5. doi: 10.1021/acs.analchem.8b01638. [Epub ahead of print]

PMID:
29924586
4.

Systems Analyses Reveal Physiological Roles and Genetic Regulators of Liver Lipid Species.

Jha P, McDevitt MT, Gupta R, Quiros PM, Williams EG, Gariani K, Sleiman MB, Diserens L, Jochem A, Ulbrich A, Coon JJ, Auwerx J, Pagliarini DJ.

Cell Syst. 2018 Jun 27;6(6):722-733.e6. doi: 10.1016/j.cels.2018.05.016. Epub 2018 Jun 13.

5.

Genetic Regulation of Plasma Lipid Species and Their Association with Metabolic Phenotypes.

Jha P, McDevitt MT, Halilbasic E, Williams EG, Quiros PM, Gariani K, Sleiman MB, Gupta R, Ulbrich A, Jochem A, Coon JJ, Trauner M, Pagliarini DJ, Auwerx J.

Cell Syst. 2018 Jun 27;6(6):709-721.e6. doi: 10.1016/j.cels.2018.05.009. Epub 2018 Jun 13.

6.

Complete genome sequence and the expression pattern of plasmids of the model ethanologen Zymomonas mobilis ZM4 and its xylose-utilizing derivatives 8b and 2032.

Yang S, Vera JM, Grass J, Savvakis G, Moskvin OV, Yang Y, McIlwain SJ, Lyu Y, Zinonos I, Hebert AS, Coon JJ, Bates DM, Sato TK, Brown SD, Himmel ME, Zhang M, Landick R, Pappas KM, Zhang Y.

Biotechnol Biofuels. 2018 May 2;11:125. doi: 10.1186/s13068-018-1116-x. eCollection 2018.

7.

Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response.

MacGilvray ME, Shishkova E, Chasman D, Place M, Gitter A, Coon JJ, Gasch AP.

PLoS Comput Biol. 2018 May 8;13(5):e1006088. doi: 10.1371/journal.pcbi.1006088. eCollection 2018 May.

8.

Proteomic and Phosphoproteomic Changes Induced by Prolonged Activation of Human Eosinophils with IL-3.

Esnault S, Hebert AS, Jarjour NN, Coon JJ, Mosher DF.

J Proteome Res. 2018 Jun 1;17(6):2102-2111. doi: 10.1021/acs.jproteome.8b00057. Epub 2018 May 4.

9.

LipiDex: An Integrated Software Package for High-Confidence Lipid Identification.

Hutchins PD, Russell JD, Coon JJ.

Cell Syst. 2018 May 23;6(5):621-625.e5. doi: 10.1016/j.cels.2018.03.011. Epub 2018 Apr 25.

PMID:
29705063
10.

Expression of novel "LOCGEF" isoforms of ARHGEF18 in eosinophils.

Turton KB, Wilkerson EM, Hebert AS, Fogerty FJ, Schira HM, Botros FE, Coon JJ, Mosher DF.

J Leukoc Biol. 2018 Jul;104(1):135-145. doi: 10.1002/JLB.2MA1017-418RR. Epub 2018 Mar 30.

PMID:
29601110
11.

Caloric Restriction Engages Hepatic RNA Processing Mechanisms in Rhesus Monkeys.

Rhoads TW, Burhans MS, Chen VB, Hutchins PD, Rush MJP, Clark JP, Stark JL, McIlwain SJ, Eghbalnia HR, Pavelec DM, Ong IM, Denu JM, Markley JL, Coon JJ, Colman RJ, Anderson RM.

Cell Metab. 2018 Mar 6;27(3):677-688.e5. doi: 10.1016/j.cmet.2018.01.014.

PMID:
29514073
12.

Islet proteomics reveals genetic variation in dopamine production resulting in altered insulin secretion.

Mitok KA, Freiberger EC, Schueler KL, Rabaglia ME, Stapleton DS, Kwiecien NW, Malec PA, Hebert AS, Broman AT, Kennedy RT, Keller MP, Coon JJ, Attie AD.

J Biol Chem. 2018 Apr 20;293(16):5860-5877. doi: 10.1074/jbc.RA117.001102. Epub 2018 Mar 1.

PMID:
29496998
13.

Novosphingobium aromaticivorans uses a Nu-class glutathione S-transferase as a glutathione lyase in breaking the β-aryl ether bond of lignin.

Kontur WS, Bingman CA, Olmsted CN, Wassarman DR, Ulbrich A, Gall DL, Smith RW, Yusko LM, Fox BG, Noguera DR, Coon JJ, Donohue TJ.

J Biol Chem. 2018 Apr 6;293(14):4955-4968. doi: 10.1074/jbc.RA117.001268. Epub 2018 Feb 15.

14.

Identifying Novel Signaling Pathways: An Exercise Scientists Guide to Phosphoproteomics.

Wilson GM, Blanco R, Coon JJ, Hornberger TA.

Exerc Sport Sci Rev. 2018 Apr;46(2):76-85. doi: 10.1249/JES.0000000000000146.

PMID:
29346157
15.

Chemical genomic guided engineering of gamma-valerolactone tolerant yeast.

Bottoms S, Dickinson Q, McGee M, Hinchman L, Higbee A, Hebert A, Serate J, Xie D, Zhang Y, Coon JJ, Myers CL, Landick R, Piotrowski JS.

Microb Cell Fact. 2018 Jan 12;17(1):5. doi: 10.1186/s12934-017-0848-9.

16.

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.

17.

ATM directs DNA damage responses and proteostasis via genetically separable pathways.

Lee JH, Mand MR, Kao CH, Zhou Y, Ryu SW, Richards AL, Coon JJ, Paull TT.

Sci Signal. 2018 Jan 9;11(512). pii: eaan5598. doi: 10.1126/scisignal.aan5598.

18.

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.

PMID:
29272103
19.

Multi-omics Reveal Specific Targets of the RNA-Binding Protein Puf3p and Its Orchestration of Mitochondrial Biogenesis.

Lapointe CP, Stefely JA, Jochem A, Hutchins PD, Wilson GM, Kwiecien NW, Coon JJ, Wickens M, Pagliarini DJ.

Cell Syst. 2018 Jan 24;6(1):125-135.e6. doi: 10.1016/j.cels.2017.11.012. Epub 2017 Dec 13.

PMID:
29248374
20.

Multi-omic Mitoprotease Profiling Defines a Role for Oct1p in Coenzyme Q Production.

Veling MT, Reidenbach AG, Freiberger EC, Kwiecien NW, Hutchins PD, Drahnak MJ, Jochem A, Ulbrich A, Rush MJP, Russell JD, Coon JJ, Pagliarini DJ.

Mol Cell. 2017 Dec 7;68(5):970-977.e11. doi: 10.1016/j.molcel.2017.11.023.

PMID:
29220658
21.

A Molecular Portrait of De Novo Genes in Yeasts.

Vakirlis N, Hebert AS, Opulente DA, Achaz G, Hittinger CT, Fischer G, Coon JJ, Lafontaine I.

Mol Biol Evol. 2018 Mar 1;35(3):631-645. doi: 10.1093/molbev/msx315.

PMID:
29220506
22.

Conserved Lipid and Small-Molecule Modulation of COQ8 Reveals Regulation of the Ancient Kinase-like UbiB Family.

Reidenbach AG, Kemmerer ZA, Aydin D, Jochem A, McDevitt MT, Hutchins PD, Stark JL, Stefely JA, Reddy T, Hebert AS, Wilkerson EM, Johnson IE, Bingman CA, Markley JL, Coon JJ, Dal Peraro M, Pagliarini DJ.

Cell Chem Biol. 2018 Feb 15;25(2):154-165.e11. doi: 10.1016/j.chembiol.2017.11.001. Epub 2017 Nov 30.

PMID:
29198567
23.

The Role of Electron Transfer Dissociation in Modern Proteomics.

Riley NM, Coon JJ.

Anal Chem. 2018 Jan 2;90(1):40-64. doi: 10.1021/acs.analchem.7b04810. Epub 2017 Dec 12. No abstract available.

24.

Phosphorylation Dynamics Dominate the Regulated Proteome during Early Xenopus Development.

Peuchen EH, Cox OF, Sun L, Hebert AS, Coon JJ, Champion MM, Dovichi NJ, Huber PW.

Sci Rep. 2017 Nov 15;7(1):15647. doi: 10.1038/s41598-017-15936-y.

25.

The dental calculus metabolome in modern and historic samples.

Velsko IM, Overmyer KA, Speller C, Klaus L, Collins MJ, Loe L, Frantz LAF, Sankaranarayanan K, Lewis CM Jr, Martinez JBR, Chaves E, Coon JJ, Larson G, Warinner C.

Metabolomics. 2017;13(11):134. doi: 10.1007/s11306-017-1270-3. Epub 2017 Oct 3.

26.

Proteomics of Eosinophil Activation.

Mosher DF, Wilkerson EM, Turton KB, Hebert AS, Coon JJ.

Front Med (Lausanne). 2017 Sep 29;4:159. doi: 10.3389/fmed.2017.00159. eCollection 2017. Review.

27.

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.

PMID:
29027149
28.

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.

29.

A Split-Abl Kinase for Direct Activation in Cells.

Diaz JE, Morgan CW, Minogue CE, Hebert AS, Coon JJ, Wells JA.

Cell Chem Biol. 2017 Oct 19;24(10):1250-1258.e4. doi: 10.1016/j.chembiol.2017.08.007. Epub 2017 Sep 14.

PMID:
28919041
30.

GATA Factor-Regulated Samd14 Enhancer Confers Red Blood Cell Regeneration and Survival in Severe Anemia.

Hewitt KJ, Katsumura KR, Matson DR, Devadas P, Tanimura N, Hebert AS, Coon JJ, Kim JS, Dewey CN, Keles S, Hao S, Paulson RF, Bresnick EH.

Dev Cell. 2017 Aug 7;42(3):213-225.e4. doi: 10.1016/j.devcel.2017.07.009.

PMID:
28787589
31.

Influenza virus recruits host protein kinase C to control assembly and activity of its replication machinery.

Mondal A, Dawson AR, Potts GK, Freiberger EC, Baker SF, Moser LA, Bernard KA, Coon JJ, Mehle A.

Elife. 2017 Jul 31;6. pii: e26910. doi: 10.7554/eLife.26910.

32.

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.

33.

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.

PMID:
28589488
34.

Erythropoietin signaling regulates heme biosynthesis.

Chung J, Wittig JG, Ghamari A, Maeda M, Dailey TA, Bergonia H, Kafina MD, Coughlin EE, Minogue CE, Hebert AS, Li L, Kaplan J, Lodish HF, Bauer DE, Orkin SH, Cantor AB, Maeda T, Phillips JD, Coon JJ, Pagliarini DJ, Dailey HA, Paw BH.

Elife. 2017 May 29;6. pii: e24767. doi: 10.7554/eLife.24767.

35.

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.

PMID:
28542873
36.

Integrative proteomics and biochemical analyses define Ptc6p as the Saccharomyces cerevisiae pyruvate dehydrogenase phosphatase.

Guo X, Niemi NM, Coon JJ, Pagliarini DJ.

J Biol Chem. 2017 Jul 14;292(28):11751-11759. doi: 10.1074/jbc.M117.787341. Epub 2017 May 24.

PMID:
28539364
37.

Global mapping of CARM1 substrates defines enzyme specificity and substrate recognition.

Shishkova E, Zeng H, Liu F, Kwiecien NW, Hebert AS, Coon JJ, Xu W.

Nat Commun. 2017 May 24;8:15571. doi: 10.1038/ncomms15571.

38.

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.

39.

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.

40.

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.

41.

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.

42.

Ptc7p Dephosphorylates Select Mitochondrial Proteins to Enhance Metabolic Function.

Guo X, Niemi NM, Hutchins PD, Condon SGF, Jochem A, Ulbrich A, Higbee AJ, Russell JD, Senes A, Coon JJ, Pagliarini DJ.

Cell Rep. 2017 Jan 10;18(2):307-313. doi: 10.1016/j.celrep.2016.12.049.

43.

Correction: Directed Evolution Reveals Unexpected Epistatic Interactions That Alter Metabolic Regulation and Enable Anaerobic Xylose Use by Saccharomyces cerevisiae.

Sato TK, Tremaine M, Parreiras LS, Hebert AS, Myers KS, Higbee AJ, Sardi M, McIlwain SJ, Ong IM, Breuer RJ, Narasimhan RA, McGee MA, Dickinson Q, La Reau A, Xie D, Tian M, Piotrowski JS, Reed JL, Zhang Y, Coon JJ, Hittinger CT, Gasch AP, Landick R.

PLoS Genet. 2016 Nov 9;12(11):e1006447. doi: 10.1371/journal.pgen.1006447. eCollection 2016 Nov.

44.

Inhibition of microbial biofuel production in drought-stressed switchgrass hydrolysate.

Ong RG, Higbee A, Bottoms S, Dickinson Q, Xie D, Smith SA, Serate J, Pohlmann E, Jones AD, Coon JJ, Sato TK, Sanford GR, Eilert D, Oates LG, Piotrowski JS, Bates DM, Cavalier D, Zhang Y.

Biotechnol Biofuels. 2016 Nov 8;9:237. eCollection 2016.

45.

Ongoing resolution of duplicate gene functions shapes the diversification of a metabolic network.

Kuang MC, Hutchins PD, Russell JD, Coon JJ, Hittinger CT.

Elife. 2016 Sep 30;5. pii: e19027. doi: 10.7554/eLife.19027.

46.

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
47.

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.

48.

Now, More Than Ever, Proteomics Needs Better Chromatography.

Shishkova E, Hebert AS, Coon JJ.

Cell Syst. 2016 Oct 26;3(4):321-324. doi: 10.1016/j.cels.2016.10.007.

49.

Multi-omics Evidence for Inheritance of Energy Pathways in Red Blood Cells.

Weisenhorn EM, van T Erve TJ, Riley NM, Hess JR, Raife TJ, Coon JJ.

Mol Cell Proteomics. 2016 Dec;15(12):3614-3623. Epub 2016 Oct 24.

50.

Directed Evolution Reveals Unexpected Epistatic Interactions That Alter Metabolic Regulation and Enable Anaerobic Xylose Use by Saccharomyces cerevisiae.

Sato TK, Tremaine M, Parreiras LS, Hebert AS, Myers KS, Higbee AJ, Sardi M, McIlwain SJ, Ong IM, Breuer RJ, Avanasi Narasimhan R, McGee MA, Dickinson Q, La Reau A, Xie D, Tian M, Reed JL, Zhang Y, Coon JJ, Hittinger CT, Gasch AP, Landick R.

PLoS Genet. 2016 Oct 14;12(10):e1006372. doi: 10.1371/journal.pgen.1006372. eCollection 2016 Oct. Erratum in: PLoS Genet. 2016 Nov 9;12 (11):e1006447.

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