Raftery Lab Publications

2014

  • Dai, D.F., Karunadharma, P.P., Chiao, Y.A., Basisty, N., Crispin D., Hsieh, E.J., Chen, T., Gu, H., Djukovic, D., Raftery, D., Beyer, R.P., MacCoss, M.J., Rabinovitch, P.S.: Altered Proteome Turnover and Remodeling by Subacute Caloric Restriction and Rapamycin Rejuvenate the Aging Heart, Aging Cell, 13:529-539, 2014.
  • Bowers, J., Hughes, E., Skill, M., Maluccio, M., Raftery, D.: Detection of Hepatocellular Carcinoma in Hepatitis C Patients: Biomarker Discovery by LC-MS, J. Chromatogr. B 966:154-162, 2014.
  • Nagana Gowda, G.A., Raftery, D.: Quantitative Metabolites in Protein Precipitated Serum Using NMR Spectroscopy. Anal. Chem. 86:5433-5440, 2014
  • Zhu, J., Djukovic, D., Deng, L., Gu, H., Himmati, F., Chiorean, E.G., Raftery, D.: Colorectal Cancer Detection using Targeted Serum Metabolic Profiling. J. Proteome Res. 13:4120-4130, 2014.
  • Abdul-Hamid Emwas, A.-H., Luchinat, C., Turano, P., Tenori, L., Roy, R., Salek, R.M., Ryan, D., Merzaban, J.S., Kaddurah-Daouk, R., Zeri, A.C., Nagana Gowda, G.A., Raftery, D., Wang, Y., Brennan, L., Wishart, D.S., “Standardizing the Experimental Conditions for using Urine in NMR-Based Metabolomic Studies with a Particular Focus on Diagnostic Studies: a Review,” Metabolomics, in press.
  • Carroll, P. Diolaiti, D., McFerrin, L., Gu, H., Djukovic, D., Du, D., Cheng, P.F., Anderson, S., Ulrich, M., Hurley, J.B., Raftery, D., Ayer, D.E., Eisenman, R.N.: Deregulated Myc Requires MondoA/Mlx for Metabolic Reprogramming and Tumorigenesis. Cancer Cell, in press.
  • Reyes, N.L., Banks, G.B., Tsang, M., Margineantu, D., Gu, H., Chan, J., Torres, M., Liggitt, H.D., Hockenbery, D.M., Raftery, D., Iritani, B.: Fnip1 Regulates Skeletal Muscle Fiber Type Specification, Fatigue Resistance, and Susceptibility to Muscular Dystrophy. PNAS, accepted.
  • Nagana Gowda, G.A., Gowda, Y.N., Raftery, D.: Expanding the Limits of Human Blood Metabolite Quantitation using NMR Spectroscopy. Anal. Chem. in press.
  • Raftery, D., ed., Mass Spectrometry in Metabolomics: Methods and Protocols, Methods in Molecular Biology, Vol. 1198. Humana Press/Springer Science. (2014). ISBN 978-1-4939-1257-5.
  • Nagana Gowda, G.A., Raftery, D.: Advances in NMR-Based Metabolomics. In Simo, C., Cifuentes, A., Garcia-Canas, V. (eds.): Fundamentals of Advanced Omics Technologies: From Genes to Metabolites. Elsevier, Amsterdam. 2014 pp 187-211.
  • Xi, B., Baniasadi, H., Raftery, D.: Statistical Analysis and Modeling of Mass Spectrometry-Based Metabolomics Data. In Raftery, D. (eds.): Methods in Molecular Biology. 2014; 1198: 333-53.
  • Zhang, S. Raftery, D.: Headspace SPME-GC-MS Metabolomics Analysis of Urinary Organic Compounds (VOCs). In Raftery, D. (eds.): Methods in Molecular Biology. 2014; 1198: 265-72.

2013

  • Wei, S., Liu, L., Zhang, J., Bowers, J., Nagana Gowda, G.A., Seeger, H., Fehm, T., Neubauer, H.J., Vogel, U., Clare, S.E., Raftery, D.: Metabolomics Approach for Predicting Response to Neoadjuvant Chemotherapy for Breast Cancer. Mol. Oncol. 7:297-307, 2013.
  • Thornton, J.M., Raftery, D.: Hydrogen Evolution by Templated Cadmium Indate Nanoparticles under Natural Sunlight Illumination. Int. J. Hydrogen Energy 38:7741–7749, 2013.
  • Zheng, W., Tayyari, F., Nagana Gowda, G.A., Raftery, D., McLamore, E.S., Shi, J., Porterfield, D.M., Donkin, S., Bequette, B., Teegarden, D.: 1, 25 Dihydroxyvitamin D Regulation of Glucose Metabolism in Harvey-ras Transformed MCF10A Human Breast Epithelial Cells. J. Steroid Biol. Molec. Biol. 138:81-89, 2013.
  • Appiah-Amponsah, E., Owusu-Sarfo, K., Nagana Gowda, G.A., Ye, T., Raftery, D.: Combining Hydrophilic Interaction Chromatography (HILIC) and Isotope Tagging for Off-Line LC-NMR Applications in Metabolite Analysis. Metabolites 3:575-591, 2013.
  • Baniasadi, H., Nagana Gowda, G.A., Gu, H., Zeng, A., Zhuang, S., Skill, N., Maluccio, M., Raftery, D.: Targeted Metabolic Profiling of Hepatocellular Carcinoma and Hepatitis C using LC-MS/MS. Electrophoresis, 34:2910-2917, 2013.
  • Zheng, W., Tayyari, F., Nagana Gowda, G.A., Raftery, D., McLamore , E.S., Shi, J., Porterfield, D.M., Bequette, B., Donkin, S., Teegarden, D.: Altered Glucose Metabolism in Harvey-ras Transformed MCF10A Cells. Mol Carcinogenesis. Published online Sept 2, 2013. DOI 10.1002/mc.22079.
  • Zhang, S., Myracle, A., Xiao, K., Yan, P., Ye, T., Janle, E., Raftery, D. Metabolic Profiling of Green Tea Treatments in Zucker Diabetic Rats Using 1H NMR. J. Nutr. Food. Sci. 3:1000239, 2013.
  • Nagana Gowda, G.A., Raftery, D.: Biomarker Discovery and Translation in Metabolomics, Current Metabolomics, 1:227-240, 2013.
  • Thornton, J.M., Raftery, D.: Photocatalysts for Solar Hydrogen Conversion. In Suib, S. (ed.): Photocatalysts for Solar Hydrogen Conversion, New and Future Developments in Catalysis. Solar Photocatalysis, 1st Ed. Elsevier. Amsterdam. 2013 ISBN: 9780444538727
  • Tayyari, F., Nagana Gowda, G.A., Gu, H., Raftery, D.: 15N-Cholamine – A Smart Isotope Tag for Combining NMR- and MS-Based Metabolite Profiling. Anal. Chem. 85:8715-8721, 2013.
  • Gu, H., Nagana Gowda, G.A., Carnevale Neto, F., Opp, M.R., Raftery, D.: RAMSY: Ratio Analysis of Mass Spectrometry to Improve Compound Identification, Anal. Chem. 85:10771-10779, 2013.
  • Kalyuzhnaya, M., Yang, S., Rozova, O., Smalley, N., Clubb, J., Lamb, A., Ajjappa, N.-G., Raftery, D., Fu, Y., Bringel, F., Vuilleumier, S., Beck, D.A.C., Trotsenko, Y.A., Khmelenina V.N., Lidstrom, M.E. Highly Efficient Methane Biocatalysis Revealed in a Methanotrophic Bacterium. Nature Comm. 4:2795, 2013.

2012

  • Gu, H., Nagana Gowda, G.A., Raftery, D.: Metabolic profiling: Are we en route to better diagnostic tests for cancer?  Future Oncology. In press.
  • Liu, L., Mo, H., Wei, S., Raftery, D.: Quantitative Analysis of Urea in Human Urine and Serum by 1H Nuclear Magnetic Resonance. Analyst 137:595-600, 2012.
  • Zhang, J., Bowers, J., Liu, L., Wei, S., Nagana Gowda, G.A., Hammoud, Z., Raftery, D.: Esophageal Cancer Metabolite Biomarkers Detected by LC-MS and NMR Methods. PlosOne. 7:e30181, 2012.
  • Ye, T., Zheng, C., Zhang, S., Nagana Gowda, G.A., Vitek, O., Raftery, D.: “Add to Subtract”: A Simple Method to Remove Complex Background Signals from the 1H Nuclear Magnetic Resonance Spectra of Mixtures, Analytical Chemistry 84:994-1002, 2012. PMCID: PMC3282557
  • Thornton, J.M., Raftery, D.: Efficient Photocatalytic Hydrogen Production by Platinum-Loaded Carbon-Doped Cadmium Indate Nanoparticles. ACS Appl. Mater. Interfaces 4:2426-2431,2012.
  • Blount, J.W., Ferruzzi, M., Raftery D., Pasinetti, G.M., Dixon, R.A.: Enzymatic Synthesis of Substituted Epicatechins for Bioactivity Studies in Neurological Disorders. Biochem. Biophys. Res. Comm. 417:457-461, 2012.
  • Wang, J., Ferruzzi, M.G., Ho, L., Blount, J., Janle, E.M., Gong, B., Pan, Y., Nagana Gowda, G.A., Raftery, D., Arrieta-Cruz, I., Sharma, V., Cooper, B., Lobo, J., Simon, J., Zhang, C., Cheng, A., Qian, X., Ono, K., Teplow, D., Pavlides, C., Dixon, R., and Pasinetti G.: Brain-Targeted Proanthocyanidin Metabolites for Alzheimer's Disease Treatment. J. Neuroscience 32:5144-5150, 2012.  PMCID: PMC3348654
  • Wei, S., Suryani, Y., Nagana Gowda, G.A., Skill, N., Maluccio, M., Raftery, D.: Differentiating Hepatocellular Carcinoma from Hepatitis C Using Metabolite Profiling. Metabolites 2:701-716, 2012.
  • Wei, S., Liu, L., Zhang, J., Bowers, J., Nagana Gowda, G.A., Seeger, H., Fehm, T., Neubauer, H.J., Vogel, U., Clare, S.E., Raftery, D.: Metabolomics Approach for Predicting Response to Neoadjuvant Chemotherapy for Breast Cancer. Mol. Oncol. In press.
  • Gowda, G.A.N., Shanaiah, N., Raftery D.: Isotope enhanced approaches in metabolomics. Adv. Exp. Med. Biol. 992:147-64, 2012.