All Faculty and Research Staff Publications

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Vakirlis N, Hebert AS, Opulente DA, Achaz G, Hittinger CT, Fischer G, Coon JJ, Lafontaine I. A Molecular Portrait of De Novo Genes in Yeasts. Molecular Biology and Evolution. 2018 ;35:631-645.
Martin-Garrido A, Biesiadecki BJ, Salhi HE, Shaifta Y, Remedios CG dos, Ayaz-Guner S, Cai WX, Ge Y, Avkiran M, Kentish JC. Monophosphorylation of cardiac troponin-I at Ser-23/24 is sufficient to regulate cardiac myofibrillar Ca2+ sensitivity and calpain-induced proteolysis. Journal of Biological Chemistry. 2018 ;293:8588-8599.
Zhang YZ, DeLaney K, Hui LM, Wang JH, Sturm RM, Li LJ. A Multifaceted Mass Spectrometric Method to Probe Feeding Related Neuropeptide Changes in Callinectes sapidus and Carcinus maenas. Journal of the American Society for Mass Spectrometry. 2018 ;29:948-960.
Lapointe CP, Stefely JA, Jochem A, Hutchins PD, Wilson GM, Kwiecien NW, Coon JJ, Wickens M, Pagliarini DJ. Multi-omics Reveal Specific Targets of the RNA-Binding Protein Puf3p and Its Orchestration of Mitochondrial Biogenesis. Cell Systems. 2018 ;6:125-+.
Overmyer KA, Tyanova S, Hebert AS, Westphall MS, Cox J, Coon JJ. Multiplexed proteome analysis with neutron-encoded stable isotope labeling in cells and mice. Nature Protocols. 2018 ;13:293-306.
Kim SH, Stiles SG, Feichtmeier JM, Ramesh N, Zhan L, Scalf MA, Smith LM, U. Pandey B, Tibbetts RS. Mutation-dependent aggregation and toxicity in a Drosophila model for UBQLN2-associated ALS. Human Molecular Genetics. 2018 ;27:322-337.
Hirshberg B, Molina EAR, Gotz AW, Hammerich AD, Nathanson GM, Bertram TH, Johnson MA, Gerber RB. N2O5 at water surfaces: binding forces, charge separation, energy accommodation and atmospheric implications. Physical Chemistry Chemical Physics. 2018 ;20:17961-17976.
Shearer MJ, Li MY, Li LJ, Jin S, Hamers RJ. Nanoscale Surface Photovoltage Mapping of 2D Materials and Heterostructures by Illuminated Kelvin Probe Force Microscopy. Journal of Physical Chemistry C. 2018 ;122:13564-13571.
Nori-Shargh D, Weinhold F. Natural Bond Orbital Theory of Pseudo-Jahn-Teller Effects. Journal of Physical Chemistry A. 2018 ;122:4490-4498.
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.
Yang N, Anapindi KDB, Rubakhin SS, Wei PL, Yu Q, Li LJ, Kenny PJ, Sweedler JV. Neuropeptidomics of the Rat Habenular Nuclei. Journal of Proteome Research. 2018 ;17:1463-1473.
Van Vleet MJ, Misquitta AJ, Schmidt JR. New Angles on Standard Force Fields: Toward a General Approach for Treating Atomic-Level Anisotropy. Journal of Chemical Theory and Computation. 2018 ;14:739-758.
DeLaney K, Buchberger AR, Atkinson L, Grunder S, Mousley A, Li LJ. New techniques, applications and perspectives in neuropeptide research. Journal of Experimental Biology. 2018 ;221.
Chen GJ, Ma B, Xie RS, Wang YY, Dou KF, Gong S. NIR-induced spatiotemporally controlled gene silencing by upconversion nanoparticle-based siRNA nanocarrier. Journal of Controlled Release. 2018 ;282:148-155.
Wei LM, Gregorich ZR, Lin ZQ, Cai WX, Jin YT, McKiernan SH, McIlwain S, Aiken JM, Moss RL, Diffee GM, et al. Novel Sarcopenia-related Alterations in Sarcomeric Protein Post-translational Modifications (PTMs) in Skeletal Muscles Identified by Top-down Proteomics. Molecular & Cellular Proteomics. 2018 ;17:148-159.
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.
Chada JP, Xu ZR, Zhao DT, Watson RB, Brammer M, Bigi M, Rosenfeld DC, Hermans I, Huber GW. Oligomerization of 1-butene over carbon-supported CoOx and subsequent isomerization/hydroformylation to n-nonanal. Catalysis Communications. 2018 ;114:93-97.
Chen BF, Lin ZQ, Alpert AJ, Fu CX, Zhang QY, Pritts WA, Ge Y. Online Hydrophobic Interaction Chromatography-Mass Spectrometry for the Analysis of Intact Monoclonal Antibodies. Analytical Chemistry. 2018 ;90:7135-7138.
Robinson ME, Ng JD, Zhang HL, Buchman JT, Shenderova OA, Haynes CL, Ma ZQ, Goldsmith RH, Hamers RJ. Optically Detected Magnetic Resonance for Selective Imaging of Diamond Nanoparticles. Analytical Chemistry. 2018 ;90:769-776.
Rojas ER, Billings G, Odermatt PD, Auer GK, Zhu L, Miguel A, Chang F, Weibel DB, Theriot JA, Huang KC. The outer membrane is an essential load-bearing element in Gram-negative bacteria. Nature. 2018 ;559:617-+.
Milner PJ, Martell JD, Siegelman RL, Gygi D, Weston SC, Long JR. Overcoming double-step CO2 adsorption and minimizing water co-adsorption in bulky diamine-appended variants of Mg-2(dobpdc). Chemical Science. 2018 ;9:160-174.
Milner PJ, Martell JD, Siegelman RL, Gygi D, Weston SC, Long JR. Overcoming double-step CO2 adsorption and minimizing water co-adsorption in bulky diamine-appended variants of Mg-2(dobpdc). Chemical Science. 2018 ;9:160-174.
Pakula RJ, Srebro-Hooper M, Fry CG, Reich HJ, Autschbach J, Berry JF. Palladium Acetate Revisited: Unusual Ring-Current Effects, One-Electron Reduction, and Metal-Metal Bonding. Inorganic Chemistry. 2018 ;57:8046-8049.
Fredrickson DC. Parallels in Structural Chemistry between the Molecular and Metallic Realms Revealed by Complex Intermetallic Phases. Accounts of Chemical Research. 2018 ;51:248-257.
Rank LA, Walsh NM, Lim FY, Gellman SH, Keller NP, Hull CM. Peptide-Like Nylon-3 Polymers with Activity against Phylogenetically Diverse, Intrinsically Drug-Resistant Pathogenic Fungi. Msphere. 2018 ;3.
Kregel SJ, Thurston GK, Garand E. Photoelectron spectroscopy of anthracene and fluoranthene radical anions. Journal of Chemical Physics. 2018 ;148.
Nason SL, Miller EL, Karthikeyan KG, Pedersen JA. Plant-Induced Changes to Rhizosphere pH Impact Leaf Accumulation of Lamotrigine but Not Carbamazepine. Environmental Science & Technology Letters. 2018 ;5:377-381.
Preger Y, Root TW, Stahl SS. Platinum-Based Heterogeneous Catalysts for Nitrile Synthesis via Aerobic Oxidative Coupling of Alcohols and Ammonia. Acs Omega. 2018 ;3:6091-6096.
Su Y, Xu J, Shi Q, Yu L, Cai T. Polymorphism of griseofulvin: concomitant crystallization from the melt and a single crystal structure of a metastable polymorph with anomalously large thermal expansion. Chemical Communications. 2018 ;54:358-361.
Cao QJW, Ouyang CZ, Zhong XF, Li LJ. Profiling of small molecule metabolites and neurotransmitters in crustacean hemolymph and neuronal tissues using reversed-phase LC-MS/MS. Electrophoresis. 2018 ;39:1241-1248.
Leduc RD, Schwammle V, Shortreed MR, Cesnik AJ, Solntsev SK, Shaw JB, Martin MJ, Vizcaino JA, Alpi E, Danis P, et al. ProForma: A Standard Proteoform Notation. Journal of Proteome Research. 2018 ;17:1321-1325.
Cesnik AJ, Shortreed MR, Schaffer LV, Knoener RA, Frey BL, Scalf M, Solntsev SK, Dai YX, Gasch AP, Smith LM. Proteoform Suite: Software for Constructing, Quantifying, and Visualizing Proteoform Families. Journal of Proteome Research. 2018 ;17:568-578.
Smith LM, Kelleher NL. Proteoforms as the next proteomics currency. Science. 2018 ;359:1106-1107.
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.
Cheng X, Shkel IA, Molzahn C, Lambert D, Karim R, Record MT. Quantifying Interactions of Nucleobase Atoms with Model Compounds for the Peptide Backbone and Glutamine and Asparagine Side Chains in Water. Biochemistry. 2018 ;57:2227-2237.
Chen BM, Feng Y, Frost DC, Zhong XF, Buchberger AR, Johnson J, Xu M, Kim M, Puccetti D, Diamond C, et al. Quantitative Glycomic Analysis by Mass-Defect-Based Dimethyl Pyrimidinyl Ornithine (DiPyrO) Tags and High -Resolution Mass. Analytical Chemistry. 2018 ;90:7817-7823.
Li LF, Lei M, Xie YM, Weinhold F, Schaefer HF. Quantitative Theoretical Predictions and Qualitative Bonding Analysis of the Divinylborinium System and Its AI, Ga, In, and TI Congeners. Inorganic Chemistry. 2018 ;57:7851-7859.
Stallcop LE, Alvarez-Garcia YR, Reyes-Ramos AM, Ramos-Cruz KP, Morgan MM, Shi YT, Li LJ, Beebe DJ, Domenech M, Warrick JW. Razor-printed sticker microdevices for cell-based applications. Lab on a Chip. 2018 ;18:451-462.
Chen ZW, Glover MS, Li LJ. Recent advances in ion mobility-mass spectrometry for improved structural characterization of glycans and glycoconjugates. Current Opinion in Chemical Biology. 2018 ;42:1-8.
Szilvas T, Bao NQ, Nayani K, Yu HZ, Rai PB, Twieg RJ, Mavrikakis M, Abbott NL. Redox-Triggered Orientational Responses of Liquid Crystals to Chlorine Gas. Angewandte Chemie-International Edition. 2018 ;57:9665-9669.
Voss JM, Fischer KC, Garand E. Revealing the structure of isolated peptides: IR-IR predissociation spectroscopy of protonated triglycine isomers. Journal of Molecular Spectroscopy. 2018 ;347:28-34.
Esselman B, Hill NJ. Revisiting the Bleach Oxidation of 4-tert-Butylcyclohexanol. The Chemical Educator. 2018 ;23:23-27.
Riley NM, Coon JJ. The Role of Electron Transfer Dissociation in Modern Proteomics. Analytical Chemistry. 2018 ;90:40-64.
Rengifo E, Gomez S, Arce JC, Weinhold F, Restrepo A. The role of hyperconjugation in the unusual conformation of thymine: A natural bond orbital analysis. Computational and Theoretical Chemistry. 2018 ;1130:58-62.