Editor Profile

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Dr. Farid E. Ahmed, Ph.D.

Director of Research

Present

GEM Tox Labs

Greenville, NC

United States

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  • RNA
  • DNA
  • Cancer Biology
  • Cell Culture
  • Mutation
  • PCR
  • Molecular Genetics
  • Western Blot Analysis
  • Cloning
  • Epigenetics
  • Ahmed, F.E., Hussein, L., Gouda, M., and Ahmed, N.C. (2019) Use of cytokine mechanistic approaches and microRNA expression analyses methods to develop molecular biomarkers for anti-inflammatory activities of probiotic bacteria in fermented foods. World J Clin Pathol 1(1) 1-14, 1005.
  • Ahmed, F.E., Gouda, M. M., Ahmed, N.C., and Hussein L (2019) Quantification of microRNAs by absolute digital PCR for the diagnostic screening of colon cancer. J Colon Rectal Cancer 1 (3) 10-36, DOI: 10.14302/issn.2471-7061.jcr-18-2526.
  • Ahmed, F.E., Ahmed, N.C., Gouda, M.M., Vos, P.W., and Bonnerup C. (2018) RT-qPCR for fecal mature microRNAs quantification and validation. Methods Molecular Biology 1765: 203-215.
  • Ahmed, F.E., Mohammad M, Gouda M., Hussein, L., Vos, P.W. and Ahmed, N.C. and (2018) Biochemical and molecular perspectives on polyphenol rich food, probiotic food, and their combination. Integ Food, Nutr Metab 5(5): doi:10.15761/IFNM.1000229.
  • Ahmed, F.E,, Hussein, L.A., Gouda, M.M., Vos, P.W., and Ahmed, N.C. (2018) Melt Curve Analysis in Interpretation of Nutrigenomics' MicroRNA Expression Data. Trends Res. 1 (1): 1-2 (10 pp) doi: 10.15761/TR.1000104.
  • Ahmed, F.E. (2018) Statistical Analysis of microRNA as markers for Screening of Colon Cancer. Biostatistics and Biometrics J (BBOAJ) 6(3):555691. DOI:10.19080/BBOAJ.2018.06555691.
  • Ahmed, F.E., Ahmed, N.C., Gouda, M. and Vos, P.W. (2017) MiRNAs for the Diagnostic Screening of Early Stages of Colon Cancer in Stool or Blood. Surgical Case Reports and Reviewss 1(1): 1-19, doi: 10.a5761/SCRR.1000103.
  • Ahmed, F.E., Ahmed, N.C., Gouda M and Bonnerup C. (2017) MicroRNAs as Molecular Markers for Screening of Colon Cancer. Case Rep Surg Invasive Proced 1(2): 14-17.
  • Ahmed, F.E. (2017) MicroRNAs as Molecular Markers for Colon Cancer Diagnostic Screening in Stool & Blood. Int Med Rev  9: 124; doi:10.3390/cancers9090124.
  • Ahmed, F.E., Ahmed, N.C., Gouda, M.C. and Bonnerup, C. (2017) MicroRNA as molecular markers for screening of colon cancer. Case Reports Surg Invasive Procedures 1(2): 14-15.
  • Ahmed, F.E., (2014) miRNA as markers for the diagnostic screening of colon cancer. Expert Rev Anticancer Ther.14(4):463-485. Doi: 10.1586/14737140.2014.869479.
  • Ahmed, F.E. (2014) Role of microRNA molecules in colon cancer etiology. Biol. Med. 6: 2 doi.org/10.4172/0974-8369.1002d.
  • Ahmed, F.E., Ahmed, N.C., Vos, P.W., Bonnerup, C., Atkins, J.N., Casey, M., Nuovo, G.J., Naziri, W., Wiley, J.E., Mota, H., and Allison, R.R. (2013) Diagnostic microRNA markers to screen for sporadic human colon cancer in stool: I. Proof of Principle. Cancer Genom. Proteom. 10: 93-114.
  • Ahmed, F.E.,.Ahmed, N.C., Vos, P.W., Bonnerup, C., Atkins, J.N., Casey, M., Nuovo, G. J., Naziri, W., Wiley, J.E., and Allison, R.R. (2012) Diagnostic microRNA markers to screen for human colon cancer in blood. Cancer Genom. Proteom. 9: 179-192.
  • Ahmef, F.E. (2012) Use of nanotechnology for enhancing of cancer biomarker discovery and analysis: a molecular approach. Eds. R. Rapley and S. Harbron, John Wiley & Sons, Ltd., New York, NY, pp. 175-192.
  • Ahmef, F.E. (2011) Biobanking perspective on challenges in sample handling, collection, processing, storage, analysis and retrieval for genomics, transcriptomics & proteomics data. Anal. Methods 195: 381-392.
  • Ahmed, F.E., Wiley, J.E., Weidner, D.A., Bonnerup, C. and Mota, H. (2010) Surface plasmon resonance (SPR) spectrometry as a tool to analyze nucleic acid-protein interactions in crude cellular extracts. Cancer Genom. Proteom. 7: 303-310.
  • Ahmed, F.E., Jeffries, C.D., Vos, P.W., Flake, G., Nuovo, G.J., Sinar, D.R., Naziri, W., and Marcuard, S.P. (2009) Diagnostic microRNA markers for screening sporadic human colon cancer and ulcerative colitis in stool and tissue. Cancer Genom. Proteom. 6: 281-296.
  • Ahmed, F.E., Vos, P.W., Jeffries, C., Wiley, J.E., Weidner, D.A., Mota, H. and Bonnerup, C. (2009) Differences in mRNA and microRNA microarray expression profiles in human colon adenocarcinoma HT-29 cells treated with either intensity-modulated radiation therapy (IMRT), or conventional radiation therapy (RT). Cancer Genom. Proteom. 6: 103-119.
  • Ahmed, F.E., Vos P., IJames, S., Lysle, D.T., Allison, R. R., Flake, G., Sinar, D.R., Naziri, W. and Marcuard, SP (2007) Standardization for transciptomic molecular markers to screen human colon cancer. Cancer Genom Proteom 4: 419-432.
  • Ahmed, F.E., Vos, P., iJames, S., Lysle, D.T., Allison, R. R., Flake, G., Sinar, D.R., Naziri, W. Marcuard, S.P., and Pennington, R. (2007) Transcriptomic molecular markers for screening human colon cancer in stool and tissue. Cancer Genom. Proteom. 4: 1-20.
  • Ahmed, F.E. (2009) Liquid chromatography-mass spectrometry: A tool for proteome analysis & biomarker discovery and validation. Exp. Opin. Mol. Diag. 3:429-444.
  • Ahmed F.E. (2009) Sample preparation and fractionation for proteome analysis by mass spectrometry. J. Sep. Sci. 32: 771-798.
  • Ahmed F.E. (2009) Utility of mass spectrometry for proteome analysis: II. Ion-activation methods, statistics, bioinformatics and annotation. Exp. Rev. Proteomics 6: 327-354.
  • Ahmed F.E. (2009) The role of capillary electrophoresis-mass spectrometry in proteome analysis and biomarker discovery. J. Chromatogr. B 877: 1963-1981.
  • Ahmed F.E. (2008) Utility of mass spectrometry for proteome analysis: I. Conceptual and experimental approaches. Exp. Rev. Proteomics 5: 770-796.
  • Ahmed F.E. (2008) Application of MALDI/SELDI mass spectrometry to cancer biomarker discovery and validation. Current Proteomics 5: 415-438.
  • Ahmed, F.E. (2008) Mining the oncoproteome and studying molecular interactions for biomarker development by 2DE, ChIP and SPR technologies. Exp. Rev. Proteomics 5: 469-496.
  • Ahmed, F.E. (2007) Colon cancer epigenetics: The role of environmental factors & the search for molecular biomarkers. J. Env. Sci. Health C25: 75-130.
  • Ahmed, F.E., Vos, P. and Holbert, D. (2007) Modeling survival in colon cancer: a methodological approach. Mol. Cancer 6, 68 (doi:10.11861/476-4598-6-15).
  • Ahmed, F.E. (2007) The role of micro (mi) RNA in carcinogenesis and biomarker selection: a methodological perspective. Expert Rev. Mol. Diag. 7: 569-603.
  • Ahmed, F.E. (2006) The role of genes and the environment in the etiology of inflammatory bowel diseases. Expert Rev. Mol. Diag. 6: 345-363.
  • Ahmed, F.E. (2006) Gene-gene, gene-environment & multiple interactions in colorectal cancer. J. Environ. Sci. Health C 24: 1-101.
  • Ahmed,F.E.(2006)Expression microarray proteomics & search for cancer biomarkers. Curr Genom.7:399-426.
  • Ahmed, F.E.(2006) Laser microdissection: application to carcinogenesis.Cancer Genom. Proteom. 3, 217-226.
  • Ahmed, F.E. (2006) Microarray RNA transcriptional profiling: Part I. Platforms, experimental design and standardization. Exp. Rev. Mol. Diag. 6: 535-550.
  • Ahmed, F.E. (2006) Microarray RNA transcriptional profiling: Part II. Analytical considerations and annotations. Exp. Rev. Mol. Diag. 6: 736-750.
  • Ahmed, F.E. (2005) qRT-PCR: application to carcinogenesis. Cancer Genom. Proteom. 2, 317-332.
  • Ahmed, F.E. (2005) Artificial neural networks for diagnosis and survival prediction in colon cancer. Molec. Cancer 4, 29 (doi:10.1186/1476-4598-4-20).
  • Ahmed, F.E. (2005) Development of novel diagnostic and prognostic molecular markers for sporadic colon cancer. Expert Rev. Mol. Diag. 5: 337-352.
  • Ahmed, F.E. (2005) Molecular markers that predict response to colon cancer therapy. Expert Rev. Mol. Diag. 5: 353-375.
  • Ahmed, F.E. (2005) A functional genomic approach for screening preneoplastic stages of sporadic colon cancer. Cancer Genom. Proteom. 2: 71-84.
  • Ahmed, F. E. (2004) Effect of diet, life style, and other environmental/chemopreventive factors on colorectal cancer development, and assessment of the risks. J. Environ. Sci. Health C22: 91-147.
  • Ahmed, F.E., iJames, S., Lysle, D.T., Dobbs, L.J., Jr., Johnke, R.M., Flake, G., Stockton, P., Sinar, D., Naziri, W., Evans, M.J., Kovacs, C.J. and Allison, R. R. (2004) Improved methods for extracting RNA from exfoliated human colonocytes in stool. Dig. Dis. Sci. 49: 1889-1898.
  • Ahmed, F.E., Dobbs, L.J., Jr., Johnke, R.M., iJames, S., Lysle, D.T., Sinar, D., Naziri, W., M., Kovacs, C.J., Daly, B.M. and Allison, R. R., Evans (2004) Isolation of circulating colon carcinoma cells for reverse transcriptase polymerase chain reaction. Anal. Biochem. 332: 394-397.
  • Ahmed, F.E., and Vos, P. (2004) Molecular markers for human colon cancer in stool and blood identified by RT-PCR. Anticancer Res. 24: 4127-4134.
  • Ahmed, F.E. (2004) Colorectal cancer: molecular staging models that characterize risk and enhances prognosis. Cancer Genom. Proteom. 1: 295-310.
  • Ahmed, F.E. (2003) Colon cancer: prevalence, screening, gene expression and mutation, and risk factors and assessment. J. Env. Sci. Health C21: 65-131.
  • Ahmed, F.E. (2002) Molecular techniques for studying gene expression in carcinogenesis. J. Env. Sci. Health C20: 77-116.
  • Ahmed, F.E. (2003) Analysis of polychlorinated biphenyls in food products. Tr. Anal. Chem. 22: 170-185.
  • Ahmed, F.E. (2002) Molecular methods for studying gene expression in carcinogenesis. J. Environ. Sci. Health C20: 77-116.
  • Ahmed, F.E. (2002) Testing for genetically modified organisms (GMOs) in food products. Lab Plus Intern. 16: 8-16.
  • Ahmed, F.E. (2002) Detection of genetically modified organisms in food. Tr. Biotechnol. 20: 215-223.
  • Ahmed, F.E. (2001) Detection of pesticides and their metabolites in foods and drinks. Tr. Anal. Chem. 20: 649-661.
  • Ahmed, F.E.. (2001) Toxicology and human health effects following exposure to oxygenated and reformulated gasoline. Tox. Let. 123: 89-113.
  • Ahmed, F.E. (2000) Molecular markers for early cancer detection. J. Environ. Sci. Health C18: 75-126. Ahmed, F.E. (1999) The role of oxidative stress in environmental carcinogenesis. J. Environ. Sci. Health C17: 111-142.
  • Ahmed, F.E. (1998) Molecular methods for detection of mutations. J. Environ. Sci. Health C16: 47-80.
  • Ahmed (1995) Molecular biology as a mechanistic tool in occupational, diagnostic and forensic medicine. Int. J. Occup. Med. Toxicol. 4: 433‑452.
  • Ahmed, F.E. (1995) Toxicological effects of ethanol on human health. CRC Crit. Rev. Toxicol. 25: 347‑367.
  • Ahmed, F.E. (1993) Urea facilitates quantitative estimation of DNA damage in situ by decreasing its degradation. Anal. Biochem. 65: 413‑417.
  • Ahmed, F.E. (1992) Effect of diet on cancer and its progression in humans. Environ. Carcino. Ecotoxicol. Revs. C 10: 141‑180.
  • Ahmed, F.E. (1992) Effects of nutrition on the health of the elderly. J. Am. Diet. Assoc. 92: 1102‑1108.
  • Ahmed, F.E. and Thomas, D.B. (1992) Assessment of the carcinogenicity of the nonnutritive sweetener cyclamate. CRC Crit. Rev. Toxicol. 22: 81‑118.
  • Ahmed, F.E. (1992). Evaluation of public health aspects of cattle inspection in the United States. Intl. J. Occup. Med. Toxicol. 1: 209‑222.
  • Ahmed, F.E. (1991) Naturally occurring seafood toxins. J. Toxicol. Toxin Rev. 10: 263‑287.
  • Ahmed, F.E. (1991) Effects of diet on progression of chronic renal disease. J. Am. Diet. Assoc. 91: 1266‑1272.
  • Orzel, R.A., Womble, S.E.. Ahmed, F.E. and Brasted, H.S. (1989) Flexible polyurethane foam: a literature review of thermal decomposition products and toxicity. J. Am. Col. Toxicol. 8: 1139­1175.
  • Ahmed, F.E. (1988) Basic concerns about food irradiation. Alaska Marine Resources Quart. 3: 7‑9.
  • Ahmed, F.E. (1983) Effect of dietary restriction in rodents on aging, cancer and immunologic function and some proposed mechanisms of the aging process. Pharmacopathics Quick‑Glance, pp. 1‑5, November 1983.
  • Ahmed, F.E. and Setlow, R.B. (1980) DNA repair in V‑79 cells treated with combinations of physical and chemical carcinogens. Photochem. Photobiol. 32: 629‑634.
  • Ahmed, F.E. and Setlow, R.B. (1981) DNA repair in human fibroblasts treated with combinations of chemicals. Biophys. J. 35: 17‑22.
  • Setlow, R.B. and Ahmed, F.E. (1980) DNA repair in human cells exposed to combinations of carcinogenic agents. In "Carcinogenesis: Fundamental Mechanisms and Environmental Effects". Eds. B. Pullman, P.O.P. Ts'o and H. Gelboin. D. Reidel Publishing Co., Tokyo, Japan, pp. 453‑464.
  • Ahmed, F.E. (1980) The combined action of chemical carcinogens on DNA repair in human cells. Radiat. Environ. Biophys. 18: 57‑64.
  • Ahmed, F.E. and Setlow, R.B. (1978) Excision repair in ataxia telangiectasia, Fanconi's anemia, Cockayne and Bloom's syndrome after treatment with ultraviolet radiation and N‑acetoxy‑2­acetylaminofluorene. Biochim. Biophys. Acta 521: 805‑817.
  • Lewis, N. J., Ahmed, F. E., Hart, R.W. and R. E. Gibson (1978) Design and evaluation of environmentally safe pesticides. In "A Rational Evaluation of Pesticidal vs. Mutagenic/Carcinogenic Action". Eds. Ronald W. Hart, H. F. Kraybill and F. J. De Serres. DHEW Publication No. (NIH) 7& 006, Bethesda, Maryland, pp. 11‑23.
  • Ahmed, F.E. and Setlow, R.B. (1977). Different rate limiting steps in excision repair of ultraviolet‑ and N‑acetoxy‑2‑acetylaminofluorene damaged DNA in normal human fibroblasts. Proc. Nat. Acad. Sci. USA 74: 1548‑1552.
  • Ahmed, F.E., Lewis, N.J. and Hart, R.W. (1977) Pesticide induced ouabain resistant mutants in Chinese hamster V‑79. Chem.‑Biol. Inter. 19: 369‑374.
  • Ahmed, F.E., and Hart, R.W. (1977) Pesticide induced DNA damage and its repair in cultured human cells. Mutation Res. 41:161‑174.
  • Ahmed, F.E., Robb. D.R. and Ronald W. Hart (1977) New arrangement for high intensity 313 nm light. Rev. Sci. Instrum. 48: 1422‑1424.
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