Papers Building on Funded Pilot Grants
Baker S, Banerjee S, Bonin K, Guthold M. “Determining the Mechanical Properties of Electrospun Poly-ε-caprolactone (PCL) Nanofibers using AFM and a Novel Fiber Anchoring Technique” Materials Science & Engineering C – Materials for Biological Applications (2016) 59, 203-212
Blair NT, Philipson BI, Richards PM, Doerner JF, Segura A, Silver WL, Clapham DE. (2016) Naturally-produced defensive compounds activate TRPA1. Chem. Senses. doi: 10.1093/chemse/bjv071
Blume LC, Patten T, Lyons E, Keegan BM, O’Neal JE, Bass CE, Selley DE, and Howlett AC. (2016) Cannabinoid Receptor Interacting Protein (CRIP1a) competition with β-arrestin for CB1 receptor binding sites. (Submitted March 16.)
Blume LC, Luessen D, Leone-Kabler S, Marrs GS, Bass CE, Selley DE, Chen R and Howlett AC. (2016) Cannabinoid Receptor Interacting Protein (CRIP1a) attenuates CB1R internalization. (Submitted April 16.)
Braco JT, Perry RJ, Rizzo MJ, and Johnson EC. (2016). A genome-wide behavioral screen identifies multiple regulators of metabolic hormone excitation-secretion. G3 (In review).
Collins JA, Wood ST, Nelson KJ, Rowe MA, Carlson CS, Chubinskaya S, Poole LB, Furdui CM, Loeser RF. Oxidative stress promotes peroxiredoxin hyperoxidation and attenuates pro-survival signaling in aging chondrocytes. J Biol Chem 2016
Davidson AS, Lyles DS, Alexander RW. Investigation of Vesicular Stomatitis Virus Interaction with Host Cell Proteins and Associated mRNA Structures J Microbiology (In preparation)
Fahrbach SE, Trawinski AM, Velarde RA. Actions of developmental hormones in adult social insects, In: Pfaff, DW Ed. Hormones, Brain and Behavior 3rd edtion. (2016) Elsevier: San Diego. (In press.)
Gayomba SR, Watkins JM, and Muday GK. (2016) Flavonols regulate plant growth and development through regulation of auxin transport and cellular redox status. Invited review in Recent Advances in Polyphenol Research (In press)
Gibson CL, Isley JW, Falbel TG, Hotchkiss CM, Lewis DR, Metcalf KE, Muday GK. PIN-mediated auxin transport and root gravitropism and development are controlled by SCD1 Plant Physiology (In revision)
Godwin RC*, Melvin R*.and Salsbury Jr FR. Molecular Dynamics Simulations and Computer-Aided Drug Discovery, in Methods in Pharmacology and Toxicology 10.1007/7653_2015_41 (Online ahead of print) *co-first authors
Godwin R, Gmeiner W, Salsbury Jr FR. Importance of long-time simulations for rare event sampling in zinc finger proteins.J Biomol Struct Dyn. 2016 Jan;34(1):125-34. doi: 10.1080/07391102.2015.1015168. Epub 2015 Apr 9.
Howlett A. (2016) Cannabinoid Receptor Interacting Protein (CRIP1a) Regulates Cell Surface Equilibrium and Internalization of the CB1 Cannabinoid Receptor (In revision)
Jenks MZ, Fairfield H, Morrison RJ, Muday GK. (2016) Sex steroid hormones, estradiol and dihydrotestosterone, regulate leptin transciption and protein synthesis and secretion in 3T3-L1 Adipocytes. PLOS One (In review)
Johnson EC. (2016). Physiology, behavior, and neuroendocrine circuits mediating stress responses in insects. In: Pfaff, DW Ed. Hormones, Brain and Behavior 3rd edition. (2016) Elsevier: San Diego. (In press.)
Luessen, DJ, Tyler P, Hinshaw TP, Sun H, Howlett AC, Marrs G and Chen R. (2016) RGS2 modulation of dopamine D2 receptor trafficking in neuroblastoma cells. (In revision Jan 16.)
Marayati FD, Hoskins V, Boger RW, Tucker JF, Emily F and Zhang K. The fission yeast MTREC and EJC ensure the maturation of meioic transcripts during meiosis. RNA (In revision)
Miao Z, King SB. Comparison of Reductive Ligation Detection Strategies of Nitroxyl (HNO) and S-Nitrosothiols. ChemistryOPEN, in press, DOI:10.1002/open201500200.
Ritchie MK, Johnson LC, Clodfelter JE, Pemble CW 4th, Fulp BE, Furdui CM, Kridel SJ, Lowther WT. Crystal Structure and Substrate Specificity of Human Thioesterase 2: Insights into the Molecular Basis for the Modulation of Fatty Acid Synthase. J Biol Chem. 2016 Feb 12;291(7):3520-30.
Trawinski AM and Fahrbach SE. (2016) Pheromone modulation of ecdysteroid production in adult worker honey bees (Apis mellifera). Apidologie : (In revision)
Tucker JF, Ohle C, Schermann G, Bendrin K, Zhang W, Fischer T, Zhang K. (2016). A novel epigenetic silencing pathway involving the highly conserved 5’-3’ exoribonuclease Dhp1/Rat1/Xrn2 in Schizosaccharomyces pombe. PLoS Genet 12(2):e1005873.
Van Nest BN, Wagner AE, and Fahrbach SE. (2016) Assessment of honey bee color learning in free-flying nectar foragers. Journal of Experimental Biology. (In revision)
Van Nest BN, Marrs GS, and Fahrbach SE. (2016) Mushroom body synaptic organization does not predict performance on a challenging visual learning task in honey bees. eLife. (In revision)
Weckerle A, Snipes JA, Cheng D, Gebre AK, Reisz JA, Murea M, Shelness GS, Hawkins GA, Furdui CM, Freedman BI, Parks JS, Ma L. (2016)Characterization of circulating APOL1 protein complexes in African Americans. J Lipid Res. Jan;57(1):120-30.
Wood ST, Long DL, Reisz JA, Yammani RR, Burke EA, Klomsiri C, Poole LB, Furdui CM, Loeser RF. (2016) Cysteine-mediated redox regulation of cell signaling in chondrocytes stimulated with fibronectin fragments. Arthritis Rheumatol; 68:117-26.
Brown AC, Baker S, Douglas A, Keating M, Alvarez-Elizondo M, Botvinick E, Guthold M and Barker TH “Molecular interference of fibrin’s divalent polymerization mechanism enables modulation of multiscale material properties” Biomaterials (2015) 49, 27-36
Hymbaugh Bergman SJ, Comstock LR. “N-mustard analogs of S-adenosyl-L-methionine as biochemical probes of protein arginine methylation.” Bioorg Med Chem 2015, 23, 5050-5055.
Li R, Macnamara L, Leuchter JD, Alexander RW, Cho SS. MD Simulations of tRNA and Aminoacyl-tRNA Synthetases: Dynamics, Folding, Binding, and Allostery. Int. J. Mol. Sci 16: 15872-902 (2015).
Li W, Lucioni T, Guo X, Smelser A, Guthold M “Highly Stretchable, Biocompatible, Striated Substrate Made from Fugitive Glue” Materials (2015) In Press
Miao ZR, Reisz JA, Mitroka SM, Pan J, Xian M, King S B. “A selective phosphine-based fluorescent probe for nitroxyl in living cells,” Bioorganic and Medicinal Chemistry Letters, 2015, 25, 16-19.
Norris, JL, Patton, KL, Huang, S, John, D, and Muday, GK (2015) First and Second Order Markov Posterior Probabilities on Multiple Time-Course Data Sets. Proceedings of IEEE Southeastern Conference 2015, April, 2015.
Smelser AM, Macosko JC, O’Dell AP, Smyre S, Bonin K, Holzwarth G. Mechanical properties of normal versus cancerous breast cells. Biomechanics and Modeling in Mechanobiology. 14(6): (2015).
Swanner J, Mims J, Carroll DL, Akman SA, Furdui CM, Torti SV, Singh RN. Differential cytotoxic and radiosensitizing effects of silver nanoparticles on triple-negative breast cancer and non-triple-negative breast cells. Int J Nanomedicine. 2015 Jun 11;10:3937-53.
Wu D, Guo X, Su J, Ruoying Chen R, Berenzon D, Guthold M, Bonin K, Zhao W, Zhou X “CD138-negative myeloma cells regulate mechanical properties of bone marrow stromal cells through SDF-1/CXCR4/AKT signaling pathway” Biochimica et Biophysica Acta (BBA) – Molecular Cell Research (2015) 1853 (2) 338-347
Bansal, N, Mims, J, Kuremsky JG, Olex AL, Zhao W, Yin L, Wani R, Qian J, Center B, Marrs GS, Porosnicu M, Fetrow JS, Tsang AW, Furdui, CM (2014) “Broad Phenotypic Changes Associated with Gain of Radiation Resistance in HNSCC.” Antioxid Redox Signal. April 10 [Epub ahead of print]
Calipari ES, Sun H, Eldeeb K, Luessen DJ, Feng X, Howlett AC, Jones SR, Chen R. (2014) Amphetamine self-administration attenuates dopamine D2 autoreceptor function. Neuropsychopharmacology, 39: 1833-1842. PMC4059891
Gayomba, SR, Watkins, JM, and Muday, GK (2015) Flavonols regulate plant growth and development through regulation of auxin transport and cellular redox status. Invited review in Recent Advances in Polyphenol Research (In press)
Guo X, Bonin K, Scarpinato K, Guthold M, “The effect of neighboring cells on the stiffness of cancerous and non-cancerous human mammary epithelial cells” New Journal of Physics (2014) 16, Article Number: 105002, (24 pages)
Leuchter JD, Green AT, Gilyard J, Rambarat CG, Cho SS. Coarse-grained and atomistic MD simulations of RNA and DNA folding. Israel J. Chem. Special Issue: 2013 Nobel Prize in Chemistry: Computational Chemistry of Biomolecules, 2014, 54: 1152–1164.
Li R, Stevens CA, Cho SS. Molecular dynamics simulations of protein-nanoparticle biocorona formation. Modeling, Methodologies and Tools for Molecular and Nano-scale Communications, Eds. Junichi Suzuki, Tadashi Nakano, Michael J. Moore, 2014, Springer Publishing. (In press)
Liu, C, Xiaohua Liu, X, John Janes, J, Ryan Stapley, R, Rakesh P. Patel, RP, Mark T. Gladwin, MT, and Daniel B. Kim-Shapiro (2014) DB Mechanism of Faster NO Scavenging by Older Stored Red Blood Cells. Redox Biology. 2, 211-219, 2014. PMC 3909782
Patel AL, Chen X, Wood ST, Stuart ES, Arcaro KF, Molina DP, Petrovic S, Furdui CM, Tsang AW. Activation of epidermal growth factor receptor is required for Chlamydia trachomatis development. BMC Microbiol. 2014 Dec 4;14:277.
Patton, KL, John, DJ, Norris, JL, Lewis, DR and Muday, GK (2014) Hierarchical Probabilistic Interaction Modeling for Multiple Gene Expression Replications, IEEE/ACM Transactions on Computational Biology and Bioinformatics 11:336-346.
Poole TH, Reisz JA, Zhao W., Poole LB, Furdui CM, King, SB (2014) “Strained Cycloalkynes as New Protein Sulfenic Acid Traps” J Am Chem Soc. 136: 6167-70
Stevens CA, Cho SS. GPU-Optimized Parallel Betweenness Algorithm for Identifying Critical Nodes in Communication Networks. 8th International Conference on Bio-inspired Information and Communications Technologies, 2014. (In press)
Watkins, JM, Hechler, PJ, Muday, GK (2014) Ethylene-induced flavonol accumulation in guard cells suppresses reactive oxygen species and modulates stomatal aperture. Plant Physiology: 164: 1707-1717
Liu, C, Zhao, W, Christ, GJ, Gladwin, MT, and Kim-Shapiro, DB (2013) Nitric Oxide Scavenging by Red Cell Microparticles. Free Radical Biology and Medicine. 65, 1164–1173. PMC3859830,
Furdui CM, Poole LB (2013) “Chemical approaches to detect and analyze protein sulfenic acids.” Mass Spectrum Rev. Sep 17. doi: 10.1002/mas.21384.
Markert CD, Guo X, Skardala A, Wanga Z, Bharadwaja S, Zhanga Y, Bonin K, Guthold M, (2013) “Characterizing the micro-scale elastic modulus of hydrogels for use in regenerative medicine” Journal of the Mechanical Behavior of Biomedical Materials. 27, 115–127
Reisz, JA, Bechtold, E, King, SB, Poole, LB, and Furdui, CM (2013) “Thiol-blocking electrophiles interfere with labeling and detection of protein sulfenic acids.” FEBS J., Sep 18. doi: 10.1111/febs.12535
Miller, GD, Jenks, MZ, Vendela, M, Norris, J, Muday, GK (2012) Influence of weight loss, body composition, and lifestyle behaviors on plasma adipokines: A randomized weight loss trial in older men and women with symptomatic knee osteoarthritis. Journal of Obesity, 2012, Article ID 708505, 14 pages. doi:10.1155/2012/708505
CMCS Inspired Publications
Devarie-Baez NO, Silva Lopez EI, Furdui CM. Biological chemistry and functionality of protein sulfenic acids and related thiol modifications. Free Radic Res. 2016 Feb;50(2):172-94
Gerttula S, Zinkgraf M, Muday G, Lewis D, Ibatulllin FM, Brumer H, Hart, F, Mansfield, SD, Filkov, V, and Groover, A. (2015) Transcriptional and hormonal regulation of gravitropism of woody stems in Populus. Plant Cell 27:2800-2813
Greene MA, Loeser RF. Function of the chondrocyte PI-3 kinase-Akt signaling pathway is stimulus dependent. Osteoarthritis and Cartilage (In press)
Ewenkem AJ, Parson CD, Muganda PM, Newman RH. A low cost method for tracking the induction of apoptosis using FRET-based biosensors in suspension cells. Meth. Tox. (in press)
Hill TK, Davis AL, Wheeler FB, Kelkar SS, Freund EC, Lowther WT, Kridel SJ, Mohs AM (2016) Development of a self-assembled nanoparticle formulation of orlistat, Nano-ORL, with increased cytotoxicity against human tumor cell lines. Mol. Pharm. 13, 720-729. PMID: 26824142.
Ismail H, Jones A, Kim JH, Newman RH, Kc DB. (2016) RF-Phos: A novel general phosphorylation site prediction tool based on random forest. Biomed. Int. (Bioinformatics Special Issue) (in press)
Ismail H, Newman RH, Kc DB. (2016) RF-Hydroxysite: RF-Hydroxysite: A random forest based predictor for hydroxylation sites. Mol. Biosys. (submitted)
Li X, Knight J, Fargue S, Buchalski, B., Guan, Z., Inscho, E.W., Liebow, A., Fitzgerald, K., Querbes, W., Lowther, W.T., Holmes, R.P. (2016) Metabolism of (13)C5-hydroxyproline in mouse models of Primary Hyperoxaluria and its inhibitions by RNAi therapeutics targeting liver glycolate oxidase and hydroxyproline dehydrogenase. Biochim Biophys Acta, 1862: 233-239. PMID: 26655602.
Parsonage D, Sheng, F, Hirata, K, Debnath, A, McKerrow, JH, Reed, SL, Abagyan, R, Poole, LB, and Podust, LM. X-ray structures of thioredoxin and thioredoxin reductase from Entamoeba histolytica and prevailing hypothesis of the mechanism of Auranofin action. J Struct Biol. (2016). Feb 12. doi: 10.1016/j.jsb.2016.02.015. [Epub ahead of print], PMID: 2687614727.
Poole LB and Nelson KJ Distribution and Features of the Six Classes of Peroxiredoxins. Molecules and Cells 39: 53-59 (2016).
Poynton RA, Peskin AV, Betz A., Haynes, A.C., Lowther, W.T., Hampton, M.B., and Winterbourn, C.C. (2016) Kinetic analysis of structural influences on the susceptibility of peroxiredoxins 2 and 3 to hyperoxidation, Biochemical J., 473, 411-421. PMID: 26614766
Randall LM, Manta B, Nelson KJ, Santos J, Poole LB, Denicola A: Structural changes upon peroxynitrite-mediated nitration of peroxiredoxin 2; nitrated Prx2 resembles its disulfide-oxidized form. Arch. Biochem. Biophys. 590: 101-108 (2016).
Ritchie MK, Johnson LC, Clodfelter JE, Pemble IV CW, Kridel SJ, and Lowther WT (2016) Crystal structure of human thioesterase 2: Insights into the molecular basis for the modulation of fatty acid synthase, J. Biol. Chem., 291, 3520-3530. PMID: 26663084.
Tucker JF, Ohle C, Schermann G, Bendrin K, Zhang W, Fischer T, Zhang K (2016). A novel epigenetic silencing pathway involving the highly conserved 5’-3’ exoribonuclease Dhp1/Rat1/Xrn2 in Schizosaccharomyces pombe. PLoS Genet 12(2):e1005873.
Yacovone SK, Ornelles DA, Lyles DS. 2016. The border-to-border distribution method for analysis of cytoplasmic particles and organelles. Cell Tissue Res 363(2):351-60.
Zhang Q, Wan M, Shi J, Horita DA, Miller LD, Kute TE, Kridel SJ, Kulik G, Sui G. Yin Yang 1 promotes mTORC2-mediated AKT phosphorylation. J Mol Cell Biol. 2016 Jan 13. pii: mjw002. [Epub ahead of print] PubMed PMID: 26762111.
Baez NO, Reisz JA, Furdui CM. Mass spectrometry in studies of protein thiol chemistry and signaling: opportunities and caveats. Free Radic Biol Med. 2015 Mar;80:191-211.
Berry MJ, Justus NW, Hauser JI, Case AH, Helms CC, Basu S, Rogers Z, Lewis MT, Miller GD Dietary nitrate supplementation improves exercise performance and decreases blood pressure in COPD patients. Nitric Oxide, 48:22-30, 2015.
Black KA, Dos Santos PC. An abbreviated pathway for the biosynthesis of 2-thiouridine in Bacillus subtilis. J. of Bacteriol. 197:1952–1962 (2015). Featured as editor’s stoplight. In this publication funding source associated to the Orbitrap instrument was acknowledged.
Chen X, Liu L, Mims J, Punska EC, Williams KE, Zhao W, Arcaro KF, Tsang AW, Zhou X, Furdui CM, Analysis of DNA methylation and gene expression in radiation-resistant head and neck tumors. Epigenetics. 2015 Jun 3;10(6):545-61.
Cunniff B*, Newick K*, Nelson KJ*, Wozniak AN, Beuschel S, Leavitt B, Bhave A, Butnor K, Koenig A, Chouchani ET, James AM, Lowther WT, Murphy MP, Shukla A, and Heintz NH. (2015) Disabling mitochondrial peroxide metabolism via combinatorial targeting of peroxiredoxin 3 as an effective therapeutic approach for malignant mesothelioma. PLOS OneMay 26;10(5):e0127310. doi: 10.1371/journal.pone.0127310.
Hobbs AG, Mitchell LE, Arrington ME, Gunawardena HP, DeCristo MJ, Loeser RF, Chen X, Cox AD, Campbell SL. Redox regulation of Rac1 by thiol oxidation. Free Radic Biol Med 79:237-50
Hymbaugh Bergman SJ, Comstock LR. (2015) N-Mustard analogs of S-adenosyl-L-methionine as biochemical probes of protein arginine methylation, Bioorg Med Chem, doi:10.1016/ j.bmc.2015.05.001.
Ismail H, Jones A, Kim JH, Newman RH, Kc DB. (2015) Phosphorylation sites prediction using random forest. IEEE Internat. Conf. Comp. Adv. Bio. Med. Sci. 1-6.
Jones A, Ismail H, Kim JH, Newman RH, Kc DB. (2015) RF-Phos: Random forest-based prediction of phosphorylation sites. IEEE Internat. Conf. Bioinform. Biomed. 135-140.
Langston PK, Yang M, Bierbach U, Parsonage D, Poole LB, Price MJ, Grayson JM: Au-ACRAMTU-PEt3 alters redox balance to inhibit T cell proliferation and function. J Immunol. 195: 1984-1994 (2015).
Levine EA, Votanopoulos KI, Qasem SA, Philip J, Cummins KA, Chou JA, Ruiz J, D’Agostino R, Shen P, and Miller LD. Prognostic Molecular Subtypes of Low-Grade Cancer of the Appendix. J Am Coll Surg. 2015 Dec 21. pii: S1072-7515(15)01803-7.
Li X, Knight J, Lowther WT, Holmes, R.P. (2015) Hydroxyproline metabolism in a mouse modle of Primary Hyperoxaluria Type 3. Biochim Biophys Acta, 1852, 2700-2705. PMID: 26428388.
Liu C, Wajih N, Liu X, Basu S, Janes J, Marvel M, Keggi C, Helms CC, Lee AN, Belanger AM, Diz DI, Laurienti PJ, Caudell DL, Wang J, Gladwin MT, and Kim-Shapiro DB. Mechanisms of Human Erythrocytic Bioactivation of Nitrite. J. Biol. Chem., 290, 1281–1294, 2015. PMC4294492
Lu Y, Salsbury FR Jr. Autoinhibitory mechanisms of ERG studied by molecular dynamics simulations. AIP Adv. 2015 Jan 22;5(1):017130. eCollection 2015 Jan.
Lu Y, Salsbury FR. Recapturing the Correlated Motions of Protein Using Coarse- Grained Models. Protein Pept Lett. 2015;22(7):654-9.
Mims J, Bansal N, Bharadwaj MS, Chen X, Molina AJ, Tsang AW, Furdui CM. (2015) Energy metabolism in a matched model of radiation resistance for head and neck squamous cell cancer. Radiat Res. 2015 183(3):291-304.
Olex AL, Turkett WH, Fetrow JS, Loeser RF. Integration of gene expression data with network-based analysis to identify signaling and metabolic pathways regulated during the development of osteoarthritis. Gene 2014; 542: 38–45. PMCID: PMC4031746
Parsonage D, Nelson KJ, Ferrer-Sueta G, Alley S, Karplus PA, Furdui CM, Poole LB. (2015) Dissecting peroxiredoxin catalysis: separating binding, peroxidation, and resolution for a bacterial AhpC. Biochemistry 54: 1567-1575.
Poole LB, and Schöneich C: Introduction: What we do and do not know regarding redox processes of thiols in signaling pathways, Free Radic. Biol. Med. 80: 145-147 (2015). For Special Issue on Redox Biology of Thiols in Signaling Pathways (the result of a workshop organized by Poole and Schoneich at the 2013 Annual Meeting of the Society for Free Radical Biology and Medicine in San Antonio, Texas).
Poole LB: The basics of thiols and cysteines in redox biology and chemistry. Free Radic. Biol. Med. 80: 148-157 (2015).
Perkins A, Nelson KJ, Parsonage D, Poole LB, and Karplus PA: Peroxiredoxins: Guardians against oxidative stress and modulators of peroxide signaling, Trends Biochem Sci 40:435-445 (2015).
Song Q, Wang H, Bao J, Pullikuth AK, Li KC, Miller LD, Zhou X. Systems biology approach to studying proliferation-dependent prognostic subnetworks in breast cancer. Sci Rep. 2015 Aug 10;5:12981.
Summit CB, Johnson LC, Jönsson TJ, Parsonage D, Holmes RP, and Lowther WT (2015) Proline Dehydrogenase 2 (PRODH2) is a hydroxyproline dehydrogenase (HYPDH) and molecular target for treating primary hyperoxaluria, Biochem J. 466, 273-281. PMC4377293
Sun X, Stephens L, DuBose Jr TD, Petrovic S. Adaptation by the collecting duct to an exogenous acid load is blunted by deletion of the proton-sensing receptor GPR4. Am J Physiol Renal Physiol. 2015 309:F120-36.
Vera T, D’Agostino Jr RB, Jordan JH, Whitlock MC, Meléndez GC, Lamar ZS, Porosnicu M, Bonkovsky HL, Poole LB, Hundley WG: Relation of Pre-anthracycline Serum Bilirubin Levels to Left Ventricular Ejection Fraction After Chemotherapy. Am. J. Cardiol. 116: 1752-1755 (2015).
Yu N, Puckett S, Antinozzi PA, Cramer SD, Lyles DS. 2015. Changes in Susceptibility to Oncolytic Vesicular Stomatitis Virus during Progression of Prostate Cancer. J Virol 89(10): 5250-63.
Bansal N, Mims J, Kuremsky JG, Olex AL, Zhao W, Yin L, Wani R, Qian J, Center B, Marrs GS, Porosnicu M, Fetrow JS, Tsang AW, and Furdui CM (2014) Broad phenotypic changes associated with gain of radiation resistance in head and neck squamous cell cancer. Antioxidants and Redox Signaling 21(2):221-36.
Furdui CM and Poole LB: Chemical approaches to detect and analyze protein sulfenic acids. [In Forum Issue on Redox Proteomics: From Protein Modifications to Cellular Dysfunction and Disease.] Mass Spec Rev 33: 126-146 (2014).
Klomsiri, C, Rogers, LC, Soito, L, McCauley, AK, King, SB, Nelson, KJ, Poole, LB & Daniel, LW (2014) Endosomal H2O2 production leads to localized cysteine sulfenic acid formation on proteins during lysophosphatidic acid-mediated cell signaling. Free Radic Biol Med 71C, 49-60. PMC. In press, NIHMS#586256
Maloney, GS, DiNapoli, KT, Muday, GK (2014) The anthocyanin reduced tomato mutant demonstrates the role of flavonols in tomato lateral root and root hair development. Plant Phys. Provisionally accepted.
Ma L, Shelness GS, Snipes JA, Murea M, Antinozzi PA, Cheng D, Saleem MA, Satchell SC, Banas B, Mathieson PW, Kretzler M, Hemal AK, Rudel LL, Petrovic S, Weckerle A, Pollak MR, Ross MD, Parks JS, Freedman BI. Localization of APOL1 Protein and mRNA in the Human Kidney: Nondiseased Tissue, Primary Cells, and Immortalized Cell Lines. J Am Soc Nephrol. 2014, PMID: 25012173
Miller GD, Isom S, Morgan TM, Vitolins MZ, Blackwell C, Brosnihan KB, Diz DI, Katula J, Goff D Effects of a community-based weight loss intervention on adipose tissue circulating factors. Diabetes, Obesity, and Metabolic Syndrome: Clinical Research & Reviews 8:205-211, 2014.
Negureanu L, Salsbury FR Jr. Non-specificity and synergy at the binding site of the carboplatin-induced DNA adduct via molecular dynamics simulations of the MutSα-DNA recognition complex. J Biomol Struct Dyn. 2014;32(6):969-92. doi: 10.1080/07391102.2013.799437.
Newman RH, Zhang J, Zhu H. (2014) Toward a Systems Level View of Dynamic Phosphorylation Networks. Front. Genetics. 5:263.
Newman RH, Zhang J. (2014) The design and application of fluorescent protein-based biosensors. Methods Mol Biol.;1071:1-16.
Odens HH, Lowther WT, Kridel SJ, Watts LM, Filipponi LE, and Schmitt JD (2014) Inhibition of the thioesterase activity of human fatty acid synthase by 1,4- and 9,10-diones. Chem. Pharm. Bul. (Tokyo). 62, 933-936. PMC4441091
Patel AL, Chen X, Wood ST, Stuart ES, Arcaro KF, Molina DP, Petrovic S, Furdui CM, Tsang AW. Activation of epidermal growth factor receptor is required for Chlamydia trachomatis development. BMC Microbiol. 2014 Dec 4;14:277.
Perkins A, Poole LB & Karplus PA: Tuning of peroxiredoxin catalysis for various physiological roles, Biochemistry 53: 7693-7705 (2014).
Randall LM, Manta B, Hugo M, Gil M, Batthyany C, Trujillo M, Poole LB & Denicola A: Nitration transforms a sensitive peroxiredoxin 2 into a more active and robust peroxidase. J. Biol. Chem. 289: 15536-15543 (2014).
Sanz L, Fernandez-Marcos M, Medrego A, Lewis DR, Muday GK, Pollmann, S, Duenas, M, Santos-Buelga, Lorenzo, O (2014) Nitric oxide plays a role in stem cell niche homeostasis through its interaction with auxin. Plant Phys. 166:1972-1984
Stuart CH, Horita DA, Thomas MJ, Salsbury FR Jr, Lively MO, Gmeiner WH. Site-specific DNA-doxorubicin conjugates display enhanced cytotoxicity to breast cancer cells. Bioconjug Chem. 2014 Feb 19;25(2):406-13. doi: 10.1021/bc4005427.
Lewis, DR, Olex, AL., Lundy, SR, Turkett, WH, Fetrow, JS. and Muday, GK (2013) A Kinetic Analysis of the Auxin Transcriptome Reveals Cell Wall Remodeling Proteins that Modulate Lateral Root Development in Arabidopsis. Plant Cell; 25: 3329-3346.
Li, R, Chen, R, Chen, P, Wen, Y, Ke, P, Cho SS. (2013) Computational and experimental characterizations of silver nanoparticle-apolipoprotein biocorona. J. Phys. Chem. B. 117, 13451-13456
Li, R, Ge, H, Cho, SS. (2013) Sequence-dependent base stacking interactions guide tRNA folding energy landscapes. J. Phys. Chem. B, 117, 12943-12952.
Proctor, AJ, Lipscomb, TJ, Zou, A, Anderson, AJ, Cho, SS. (2012) Performance analyses of a parallel Verlet neighbor list algorithm for GPU-optimized MD simulations. Proceedings of the ASE/IEEE International Conference on Biomedical Computing, 2012, 14-19.
Proctor, AJ, Lipscomb, TJ, Zou, A, Anderson, AJ, Cho, SS. (2012) GPU-optimized coarse-grained MD simulations of protein and RNA folding and assembly. ASE Science Journal, 2012, 1, 1-11.