Publications

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2017

  1. Ferdosi, S., Rehder, D.S., Maranian, P., Castle, E.P., Ho, T.H., Pass, H.I., Cramer, D.W., Anderson, K.S., Fu, L., Cole, D.E.C., Le, T., Wu, X., Borges, C.R. Stage Dependence, Cell-Origin Independence, and Prognostic Capacity of Serum Glycan Fucosylation, β1-4 Branching, β1-6 Branching, and α2-6 Sialylation in Cancer. J Proteome Res, epub Nov 12, 2017. doi: 10.1021/acs.jproteome.7b00672

  2. Jeffs, J.W., Ferdosi, S., Yassine, H.N., Borges, C.R.: Ex vivo instability of glycated albumin: A role for autoxidative glycation. Archives of Biochemistry and Biophysics 629: 36-42, 2017.

  3. Hu, Y. and Borges, C.R.: A spin column-free approach to sodium hydroxide-based glycan permethylation. Analyst 142(15): 2748-2759, 2017.

  4. Ingram, T., Zuck, J., Borges, C.R., Redig, P., Sweazea, K.: Variations in native protein glycation and plasma antioxidants in several birds of prey. Comparative Biochemistry & Physiology Part B 210: 18-28, 2017.

  5. Deb, A., Johnson, W.A., Kline, A.P., Scott, B.J., Meador, L.R., Srinivas, D., Martin-Garcia, J.M., Dorner, K., Borges, C.R., Misra, R., Hogue, B.G., Fromme, P., Mor, T.S.: Bacterial expression, correct membrane targeting and functional folding of the HIV-1 membrane protein Vpu using a periplasmic signal peptide. Submitted to PLoS One 12(2): 2017.

  6. Biswas, S., Sen, S., Im, J., Biswas, S., Krstic, P., Ashcroft, B., Borges, C., Zhao, Y., Lindsay, S., Zhang, P.: Universal Readers Based on Hydrogen Bonding or π-π Stacking for Identification of DNA Nucleotides in Electron Tunnel Junctions. ACS Nano 10(12): 11304-11316, 2017.

  7. Im, J., Biswas, S., Liu, H., Zhao, Y., Sen, S., Biswas, S., Ashcroft, B., Borges, C., Wang, X., Lindsay, S., Zhang, P.: Electronic Single Molecule Identification of Carbohydrate Isomers by Recognition Tunneling. Nature Communications 7: 2017.


2016

  1. Im, J., Biswas, S., Liu, H., Zhao, Y., Sen, S., Biswas, S., Ashcroft, B., Borges, C., Wang, X., Lindsay, S., Zhang, P.: Electronic Single Molecule Identification of Carbohydrate Isomers by Recognition Tunneling. Nature Communications (In Press)

  2. Zuck J., Borges C.R., Braun E.J., Sweazea K.L.: Chicken albumin exhibits natural resistance to glycation. Comparative biochemistry and physiology Part B, Biochemistry & molecular biology 2016, 203:108-114.

  3. Borges, C.R. and Rehder, D.S.: Glycan structure of Gc Protein-derived Macrophage Activating Factor as revealed by mass spectrometry. Arch Biochem Biophys 606:167-179, 2016.

  4. Trenchevska O., Yassine, H.N., Borges, C.R., Nelson, R.W., Nedelkov, D.: Development of quantitative mass spectrometric immunoassay for serum amyloid A. Biomarkers, 1-9, 2016. DOI: 10.1080/1354750X.2016.1201533

  5. Zaare S, Aguilar JS, Hu Y, Ferdosi S, Borges CRGlycan Node Analysis: A Bottom-up Approach to Glycomics. J Vis Exp. 2016 May 22;(111). doi: 10.3791/53961.

  6. Fu L, Borges CR, Rehder DS, Wong BY, Williams R, Carpenter TO, Cole DE. Characterization of additional vitamin D binding protein variants. J Steroid Biochem Mol Biol. 2016 May;159:54-9. doi: 10.1016/j.jsbmb.2016.02.022. Epub 2016 Feb 23.


2015

  1. Borges, C.R., Jeffs J.W., Kapuruge E.P.: Impact of Artifactual, Ex Vivo Oxidation on Biochemical Research. In: Oxidative Stress: Diagnostics and Therapy Volume 2. Edited by Hepel M, Andreescu S. Washington, DC: American Chemical Society; Chapter 16, pp. 375-413; 2015.

  2. Biswas S, Song WS, Borges C, Lindsay S, Zhang PM: Click Addition of a DNA Thread to the N-Termini of Peptides for Their Trans location through Solid-State Nanopores. ACS nano 2015, 9(10):9652-9664.

  3. Hanavan PD, Borges CR, Katchman BA, Faigel DO, Ho TH, Ma CT, Sergienko EA, Meurice N, Petit JL, Lake DF: Ebselen inhibits QSOX1 enzymatic activity and suppresses invasion of pancreatic and renal cancer cell lines. Oncotarget 2015.

  4. Ho TH, Nateras RN, Yan H, Park JG, Jensen S, Borges C, Lee JH, Champion MD, Tibes R, Bryce AH et al: A Multidisciplinary Biospecimen Bank of Renal Cell Carcinomas Compatible with Discovery Platforms at Mayo Clinic, Scottsdale, Arizona. PloS one 2015, 10(7):e0132831.

  5. Rehder DS, Gundberg CM, Booth SL, Borges CR: Gamma-carboxylation and fragmentation of osteocalcin in human serum defined by mass spectrometry. Molecular & cellular proteomics : MCP 2015, 14(6):1546-1555.

  6. Yassine HN, Trenchevska O, He H, Borges CR, Nedelkov D, Mack W, Kono N, Koska J, Reaven PD, Nelson RW: Serum amyloid a truncations in type 2 diabetes mellitus. PloS one 2015, 10(1):e0115320.


2014

  1. Sherma N.D., Borges C.R., Trenchevska O., Jarvis J.W., Rehder D.S., Oran P.E., Nelson R.W., Nedelkov D.  Mass Spectrometric Immunoassay for the Qualitative and Quantitative Analysis of the Cytokine Macrophage Migration Inhibitory Factor (MIF). Proteome Science 12(1):52, 2014.

  2. Borges C.R. and Lake D.F. Oxidative Protein Folding: Nature’s Knotty Challenge. Antioxid Redox Signal 21(3): 392-395, 2014.

  3. Borges C.R., Rehder D.S., Jensen S., Schaab M.R., Sherma N.D., Yassine H., Nikolova B., Breburda C. Elevated Plasma Albumin and Apolipoprotein A-I Oxidation under Suboptimal Specimen Storage Conditions. Mol Cell Proteomics 13(7):1890-1899, 2014.
    - Featured as an in-depth highlighted article in ASBMB Today (Vol 13 No.6 June/July 2014 issue, p. 16) and on the ASBMB Blog “Wild Types” (http://wildtypes.asbmb.org/2014/04/23/realizing-when-proteins-go-bad/)
    - Featured as “Paper of the Week” on the National Cancer Institute’s Biorepositories and Biospecimen Research Branch’s Research Network (June 16, 2014)

  4. Zhao, Y., Ashcroft, B., Zhang, P., Liu, H., Sen, S., Song, W., Im, J., Gyarfas, B., Manna, S., Biswas, S., Borges, C., Lindsay, S. Single-molecule spectroscopy of amino acids and peptides by recognition tunneling. Nat Nanotechnol 9(6): 466-473, 2014.

  5. Oran P.E., Trenchevska O., Nedelkov D., Borges C.R., Schaab M.R., Rehder D.S., Jarvis J.W., Sherma N.D., Shen L., Krastins B., Lopez M.F., Schwenke D.C., Reaven P.D., Nelson R.W. Parallel workflow for high-throughput (>1,000 samples/day) quantitative analysis of human insulin-like growth factor 1 using mass spectrometric immunoassay.  PLoS One, 9(3): e92801, 2014. doi: 10.1371/journal.pone.0092801.

  6. Borges C.R., Sherma N.D. Techniques for the Analysis of Cysteine Sulfhydryls and Oxidative Protein Folding. Antioxid Redox Signal, 21(3): 511-531, 2014.

  7. Yassine H.N., Jackson A.M., Borges C.R., Billheimer D., Koh H., Smith D., Reaven P., Lau S.S., Borchers C.H. The application of multiple reaction monitoring and multi-analyte profiling to HDL proteins. Lipids Health Dis 13(1): 8, 2014.


2013

  1. Borges CR, Rehder DS, Boffetta P: Multiplexed surrogate analysis of glycotransferase activity in whole biospecimens. Analytical chemistry 2013, 85(5):2927-2936.

  2. Yassine H, Borges CR, Schaab MR, Billheimer D, Stump C, Reaven P, Lau SS, Nelson R: Mass spectrometric immunoassay and MRM as targeted MS-based quantitative approaches in biomarker development: Potential applications to cardiovascular disease and diabetes. Proteomics Clinical applications 2013, 7(7-8):528-540.

  3. Chad Borges and Douglas Rehder. Glycan "Node" Analysis for Detecting and Monitoring Cancer. Glycobiology / Oxford University Press (2013).


2012

  1. Orsak, T., Smith, T.L., Eckert, D., Lindsley, J.E., Borges, C.R., Rutter, J. Revealing the Allosterome: Systematic Identification of Metabolite/Protein Interactions. Biochemistry, 51(1):225-32, 2012. [Dr. Borges developed the mass spectrometry-based screening methods for the novel technique described herein.]
    - Highlighted in Nature Chemical Biology’s “Research Highlights” section of the February 2012 issue
    - Selected and Evaluated by the Faculty of 1000


2011

  1. Bley, C.J., Qi, X., Rand, D.P., Borges, C.R., Nelson, R.W., Chen, J.J.L. RNA-protein binding interface in the telomerase ribonucleoprotein. PNAS, 108(51): 20333-8, 2011.

  2. Oran, P.E., Jarvis, J.W., Borges, C.R., Sherma, N.D., Nelson, R.W. Mass Spectrometric Immunoassay of Intact Insulin and Related Variants for Population Proteomics Studies. Proteomics Clin Appl 5: 454-9, 2011.

  3. Borges, C.R., Oran, P.E., Buddi, S., Jarvis, J.W., Schaab, M.R., Rehder, D.S., Rogers, S. P., Taylor, T. and Nelson, R.W. Building Multidimensional Biomarker Views of Type 2 Diabetes Based on Protein Microheterogeneity. Clin.Chem 57: 719-728, 2011.

  4. Nelson, R.W., Borges, C.R. Mass spectrometric immunoassay revisited. J Am Soc Mass Spectrom 22: 960-968, 2011.


2010

  1. Rehder, D. S., Borges, C. R. Cysteine Sulfenic Acid as an Intermediate in Disulfide Bond Formation and Nonenzymatic Protein Folding, Biochemistry 49: 7748-7755, 2010.

  2. Oran, P.E., Sherma, N.D., Borges, C.R., Jarvis, J.W., Nelson, R.W. Intrapersonal and Populational Heterogeneity of the Chemokine RANTES. Clin Chem 56: 1432-1441, 2010.

  3. Rehder, D. S., Borges, C. R. Possibilities and pitfalls in quantifying the extent of cysteine sulfenic acid modification of specific proteins within complex biofluids. BMC Biochemistry 11: 25, 2010.
    – Achieved “Highly Accessed” Status.

  4. Lopez, M.F., Rezai, T., Sarracino, D.A., Prakash, A., Krastins, B., Athanas, M., Singh, R.J., Barnidge, D.R., Oran, P.E., Borges, C.R., Nelson, R.W.  Selected Reaction Monitoring–Mass Spectrometric Immunoassay Responsive to Parathyroid Hormone and Related Variants Clin Chem 56: 281-290, 2010.
    – Featured as one of Clinical Chemistry’s 2010 Journal Club articles

  5. Borges, C.R., Rehder, D.S., Jarvis, J.W., Schaab, M.S., Oran, P.E., Nelson, R.W. Full length characterization of proteins in human populations Clin Chem 56: 202-211, 2010.

  6. Oran, P.E., Jarvis, J.W., Borges, C.R., Nelson, R.W. C-peptide Microheterogeneity in Type 2 Diabetes Populations Proteomics Clin Appl 4: 1-6, 2010.


2009

  1. Rehder, D. S., Nelson, R. W., Borges, C. R.. Glycosylation status of vitamin D binding protein in cancer patients. Protein Science (2009).


2008

  1. Chad R. Borges, Jason W. Jarvis, Paul E. Oran, and Randall W. Nelson. Population Studies of Vitamin D Binding Protein Microheterogeneity by Mass Spectrometry Lead to Characterization of its Genotype-Dependent O-Glycosylation Patterns. Journal of Proteome Research (2008).

  2. Chad R. Borges, Jason W. Jarvis, Paul E. Oran, Stephen P. Rogers, and Randall W. Nelson. Population Studies of Intact Vitamin D Binding Protein by Affinity Capture ESI-TOF-MS. Journal of Biomolecular Techniques (2008).


2007

  1. Hoggan, A.M., Shelby, M.K., Crouch, D.J., Borges, C.R., Slawson, M.H. “Detection of bumetanide in an over-the-counter dietary supplement” J. Anal. Toxicol. 31(9):601-4, 2007.

  2. Borges C.R., “Concept for facilitating analyst-mediated interpretation of qualitative chromatographic-mass spectral data: an alternative to manual examination of extracted ion chromatograms.” Anal. Chem. 79(13):4805-13, 2007.

  3. Borges C.R., Miller N., Shelby M., Hansen M., White C., Slawson M.H., Monti K., and Crouch D.J. “Analysis of a challenging subset of World Anti-Doping Agency-banned steroids and anti-estrogens by LC/MS/MS” J. Anal. Toxicol. 31(3):125-31, 2007.


2005

  1. Borges C.R., Taccogno J., Crouch D.J., Le L., Truong T.N. “Structure and Mechanism of Formation of an Important Ion in Doping Control.” Int. J. Mass Spectrom. 247: 48-54, 2005. 


2004

  1. Borges C.R., Qi J., Wu W, Torng E., Hinck A.P., and Watson J.T. “Algorithm-Assisted Elucidation of Disulfide Structure: Application of the Negative Signature Mass Algorithm to Mass-Mapping the Disulfide Structure of the 12-Cysteine Transforming Growth Factor β Type II Receptor Extracellular Domain.” Anal Biochem. 329(1):91-103, 2004.


2003

  1. Rollins, D.E., Wilkins, D.G., Krueger, G.G., Augsburger, M.P., Mizuno, A., O’neal, C., Borges, C.R., Slawson, M.H.  “The Effect of Hair Color on the Incorporation of Codeine into Hair.” J. Anal. Toxicol. 27: 545-551, 2003.

  2. Qi, J., Hang, D., Rupp, M., Borges, C.R., Wu, W., Torng E., and Watson, J.T.  "Automated Data Interpretation Based on the Concept of ‘Negative Signature Mass’ for Mass-Mapping Disulfide Structures of Cystinyl Proteins.” J. Amer. Soc. Mass Spectrom. 14(9): 1032-1038, 2003.
    – This article also selected for inclusion in (Issue 18, 29 August 2003) of "Proteomics Select – The Virtual Journal of Proteomics", http:\\www.proteomicsvj.com

  3. Borges, C.R., and Watson, J.T., “Recognition of Cysteine-Containing Peptides through Prompt Fragmentation of the 4-Dimethylaminophenylazophenyl-4’-maleimide Derivative During Analysis by MALDI-MS” Protein Sci. 12(7): 1567-72, 2003.

  4. Borges, C.R., Kuhn, D.M., and Watson, J.T. “Mass Mapping Sites of Nitration in Tyrosine Hydroxylase: Random versus Selective Nitration of Three Tyrosine Residues” Chem. Res. Toxicol. 16(4): 536-40, 2003. 

  5. Borges, C.R., Roberts, J.C., Wilkins, D.G., and Rollins, D.E. “Cocaine, Benzoylecgonine, Amphetamine, and N-acetylamphetamine Binding to Melanin Subtypes.” J. Anal. Toxicol. 27(3): 125-34, 2003.

  6. Wilkins, D.G., Mizuno, A., Borges, C.R., Slawson, M.H., and Rollins, D.E., “Ofloxacin as a reference marker in hair of various colors.” J. Anal. Toxicol. 27(3): 149-55, 2003.


2002

  1. Borges, C.R., Geddes, T., Watson, J.T., and Kuhn, D.M. “Dopamine biosynthesis is regulated by S-glutathionylation: Potential mechanism of tyrosine hydroxylase inhibition during oxidative stress.” J. Biol. Chem. 277(50): 48295-302, 2002. 

  2. Kuhn D.M., Sadidi M., Lu X., Kriepke C., Geddes T., Borges C., Watson J.T. “Peroxynitrite-induced nitration of tyrosine hydroxylase: identification of tyrosines 423, 428, and 432 as sites of modification by MALDI-TOF mass spectrometry and tyrosine-scanning mutagenesis.” J. Biol. Chem. 277(16): 14336-42, 2002.

  3. Borges, C.R., Martin, S.D., Meyer, L.J., Wilkins, D.G., and Rollins, D.E. “Influx and Efflux of Amphetamine and N-acetylamphetamine in Keratinocytes, Pigmented Melanocytes, and Non-Pigmented Melanocytes.” J. Pharm. Sci. 91(6): 1523-35, 2002. 


2001

  1. Borges, C.R., Wilkins, D.G., and Rollins, D.E. “Amphetamine and N-acetylamphetamine incorporation into hair: an investigation of the potential role of drug basicity in hair color bias.” J. Anal. Toxicol. 25: 221-227, 2001.

  2. Borges, C.R., Roberts, J.C., Wilkins, D.G., and Rollins, D.E. “Relationship of melanin degradation products to actual melanin content: Application to human hair.” Anal. Biochem. 290: 116-125, 2001.


2000

  1. Denkinger, D.J., Borges, C.R., Butler, C.L., Cushman, A.M., and Kawahara, R.S. "Genomic organization and regulation of the vav proto-oncogene." Biochim. Biophys. Acta 1491: 253-262, 2000.


1999

  1. Hold, K.M., Borges, C.R., Wilkins, D.G., Rollins, D.E., and Joseph, R.E. Jr. "Detection of nandrolone, testosterone and their esters in rat and human hair samples." J. Anal. Toxicol. 23: 416-423, 1999.