All Faculty and Research Staff Publications

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2018
MacGilvray ME, Shishkova E, Chasman D, Place M, Gitter A, Coon JJ, Gasch AP. Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response. Plos Computational Biology. 2018 ;14.
Kontur WS, Bingman CA, Olmsted CN, Wassarman DR, Ulbrich A, Gall DL, Smith RW, Yusko LM, Fox BG, Noguera DR, et al. Novosphingobium aromaticivorans uses a Nu-class glutathione S-transferase as a glutathione lyase in breaking the beta-aryl ether bond of lignin. Journal of Biological Chemistry. 2018 ;293:4955-4968.
Zhang Z, Hebert AS, Westphall MS, Qu Y, Coon JJ, Dovichi NJ. Production of Over 27 000 Peptide and Nearly 4400 Protein Identifications by Single-Shot Capillary-Zone Electrophoresis-Mass Spectrometry via Combination of a Very-Low-Electroosmosis Coated Capillary, a Third-Generation Electrokinetically-Pumped Sheath-Fl. Analytical Chemistry. 2018 ;90:12090-12093.
Esnault S, Hebert AS, Jarjour NN, Coon JJ, Mosher DF. Proteomic and Phosphoproteomic Changes Induced by Prolonged Activation of Human Eosinophils with IL-3. Journal of Proteome Research. 2018 ;17:2102-2111.
Riley NM, Coon JJ. The Role of Electron Transfer Dissociation in Modern Proteomics. Analytical Chemistry. 2018 ;90:40-64.
Riley NM, Westphall MS, Coon JJ. Sequencing Larger Intact Proteins (30-70 kDa) with Activated Ion Electron Transfer Dissociation. Journal of the American Society for Mass Spectrometry. 2018 ;29:140-149.
Jha P, McDevitt MT, Gupta R, Quiros PM, Williams EG, Gariani K, Sleiman MB, Diserens L, Jochem A, Ulbrich A, et al. Systems Analyses Reveal Physiological Roles and Genetic Regulators of Liver Lipid Species. Cell Systems. 2018 ;6:722-+.
Rush MJP, Riley NM, Westphall MS, Coon JJ. Top-Down Characterization of Proteins with Intact Disulfide Bonds Using Activated-Ion Electron Transfer Dissociation. Analytical Chemistry. 2018 ;90:8946-8953.
Shishkova E, Hebert AS, Westphall MS, Coon JJ. Ultra-High Pressure (>30,000 psi) Packing of Capillary Columns Enhancing Depth of Shotgun Proteomic Analyses. Analytical Chemistry. 2018 ;90:11503-11508.
Riley NM, Sikora JW, Seckler HS, Greer JB, Fellers RT, Leduc RD, Westphall MS, Thomas PM, Kelleher NL, Coon JJ. The Value of Activated Ion Electron Transfer Dissociation for High-Throughput Top-Down Characterization of Intact Proteins. Analytical Chemistry. 2018 ;90:8553-8560.
2019
Hutchins PD, Russell JD, Coon JJ. Accelerating Lipidomic Method Development through in Silico Simulation. Analytical Chemistry. 2019 ;91:9698-9706.
Dieterich IA, Lawton AJ, Peng YJ, Yu Q, Rhoads TW, Overmyer KA, Cui YS, Armstrong EA, Howell PR, Burhans MS, et al. Acetyl-CoA flux regulates the proteome and acetyl-proteome to maintain intracellular metabolic crosstalk. Nature Communications. 2019 ;10.
Riley NM, Hebert AS, Westphall MS, Coon JJ. Capturing site-specific heterogeneity with large-scale N-glycoproteome analysis. Nature Communications. 2019 ;10.
Subramanian K, Jochem A, Le Vasseur M, Lewis S, Paulson BR, Reddy TR, Russell JD, Coon JJ, Pagliarini DJ, Nunnari J. Coenzyme Q biosynthetic proteins assemble in a substrate-dependent manner into domains at ER-mitochondria contacts. Journal of Cell Biology. 2019 ;218:1352-1368.
Kemis UH, Linke V, Barrett KL, Boehm FJ, Traeger LL, Keller MP, Rabaglia ME, Schueler KL, Stapleton DS, Gatti DM, et al. Genetic determinants of gut microbiota composition and bile acid profiles in mice. Plos Genetics. 2019 ;15.
Tatli M, Hebert AS, Coon JJ, Amador-Noguez D. Genome Wide Phosphoproteome Analysis of Zymomonas mobilis Under Anaerobic, Aerobic, and N-2-Fixing Conditions. Frontiers in Microbiology. 2019 ;10.
Brademan DR, Riley NM, Kwiecien NW, Coon JJ. Interactive Peptide Spectral Annotator: A Versatile Web-based Tool for Proteomic Applications. Molecular & Cellular Proteomics. 2019 ;18:S193-S201.
Lohman DC, Aydin D, Von Bank HC, Smith RW, Linke V, Weisenhorn E, McDevitt MT, Hutchins P, Wilkerson EM, Wancewicz B, et al. An Isoprene Lipid-Binding Protein Promotes Eukaryotic Coenzyme Q Biosynthesis. Molecular Cell. 2019 ;73:763-+.
Hutchins PD, Russell JD, Coon JJ. Mapping Lipid Fragmentation for Tailored Mass Spectral Libraries. Journal of the American Society for Mass Spectrometry. 2019 ;30:659-668.
Marx H, Coon JJ. MS-Helios: a Circos wrapper to visualize multi-omic datasets. Bmc Bioinformatics. 2019 ;20:21.
Ghosh IN, Martien J, Hebert AS, Zhang YP, Coon JJ, Amador-Noguez D, Landick R. OptSSeq explores enzyme expression and function landscapes to maximize isobutanol production rate. Metabolic Engineering. 2019 ;52:324-340.
Wagner ER, Myers KS, Riley NM, Coon JJ, Gasch AP. PKA and HOG signaling contribute separable roles to anaerobic xylose fermentation in yeast engineered for biofuel production. Plos One. 2019 ;14.
Denu RA, Sass MM, Johnson JM, Potts GK, Choudhary A, Coon JJ, Burkard ME. Polo-like kinase 4 maintains centriolar satellite integrity by phosphorylation of centrosomal protein 131 (CEP131). Journal of Biological Chemistry. 2019 ;294:6531-6549.
Niemi NM, Wilson GM, Overmyer KA, Vogtle FN, Myketin L, Lohman DC, Schueler KL, Attie AD, Meisinger C, Coon JJ, et al. Pptc7 is an essential phosphatase for promoting mammalian mitochondrial metabolism and biogenesis. Nature Communications. 2019 ;10.
McKetney J, Runde RM, Hebert AS, Salamat S, Roy S, Coon JJ. Proteomic Atlas of the Human Brain in Alzheimer's Disease. Journal of Proteome Research. 2019 ;18:1380-1391.
Myers KS, Riley NM, MacGilvray ME, Sato TK, McGee M, Heilberger J, Coon JJ, Gasch AP. Rewired cellular signaling coordinates sugar and hypoxic responses for anaerobic xylose fermentation in yeast. Plos Genetics. 2019 ;15.
Strekalova E, Malin D, Weisenhorn EMM, Russell JD, Hoelper D, Jain A, Coon JJ, Lewis PW, Cryns VL. S-adenosylmethionine biosynthesis is a targetable metabolic vulnerability of cancer stem cells. Breast Cancer Research and Treatment. 2019 ;175:39-50.
Zhang ZB, Hebert AS, Westphall MS, Coon JJ, Dovichi NJ. Single-Shot Capillary Zone Electrophoresis-Tandem Mass Spectrometry Produces over 4400 Phosphopeptide Identifications from a 220 ng Sample. Journal of Proteome Research. 2019 ;18:3166-3173.

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