Dr David Ian Ellis Senior Experimental Officer Manchester Institute of Biotechnology University of Manchester 131, Princess St Manchester M1 7DN |
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Personal | Education | Publications | Miscellaneous | Contact |
Personal |
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Dr David Ian Ellis
Manchester Institute of Biotechnology, The University of Manchester, 131, Princess St, Manchester M1 7DN Email:D.Ellis@manchester.ac.uk |
Google Scholar citations |
Education |
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University of Wales, Aberystwyth BSc (Hons) Environmental Science Class 2:1, with First for dissertation on the health impacts of long-range transboundary air pollution.
University of Wales, Aberystwyth PhD Analytical Biotechnology/Microbiology; thesis title ‘Rapid Detection of Food Spoilage using Vibrational Spectroscopy and Machine Learning’. This was under the guidance and supervision of Prof. Roy Goodacre were we developed a novel method for the extremely rapid (seconds as opposed to current techniques which take hours), accurate and quantitative method for the detection of bacterial spoilage of muscle foods. |
Publications |
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Muhamadali, H., Watt, A., Xu, Y., Chisanga, M., Subaihi, A., Jones, C., Ellis, D.I., Sutcliffe, O.B. & Goodacre, R. (2019) Rapid detection and quantification of Novel Psychoactive Substances (NPS) using Raman spectroscopy and surface-enhanced Raman scattering. Frontiers in Chemistry, 7:412. doi: 10.3389/fchem.2019.00412.
Chisanga, M., Muhamadali, H., Ellis, D.I. & Goodacre, R. (2019) Enhancing disease diagnosis: biomedical applications of surface-enhanced Raman scattering. Applied Sciences, 9(6), 1163. doi: 10.3390/app9061163 Richardson, P.I.C., Muhamadali, H., Lei, Y., Golovanov, A.P., Ellis, D.I. & Goodacre, R. (2019) Detection of the adulteration of fresh coconut water via NMR spectroscopy and chemometrics. Analyst, 144, 1401-1408. doi: 10.1039/C8AN01964A Ellis, D.I., Muhamadali, H., Xu, Y., Eccles, R., Goodall, I. & Goodacre, R. (2019) Rapid through-container detection of fake spirits and methanol quantification with handheld Raman spectroscopy. Analyst, 144, 324-330. doi: http://dx.doi.org/10.1039/C8AN01702F Richardson, P.I.C., Muhamadali, H., Ellis, D.I. & Goodacre, R. (2019) Rapid quantification of the adulteration of fresh coconut water by dilution and sugars using Raman spectroscopy and chemometrics. Food Chemistry, 272, 157-164. https://doi.org/10.1016/j.foodchem.2018.08.038 Chisanga, M., Muhamadali, H., Ellis, D.I. & Goodacre, R. (2018) Surface-enhanced Raman scattering in microbiology: illumination and enhancement of the microbial world. Applied Spectroscopy, 72, 987-1000. https://doi.org/10.1177/0003702818764672 Ellis, D.I., Muhamadali, H., Chisanga, M. & Goodacre, R. (2018) Omics methods for the detection of foodborne pathogens. Encyclopedia of Food Chemistry. https://doi.org/10.1016/B978-0-08-100596-5.21793-9 Subaihi, A., Xu, Y., Muhamadali, H., Mutter, S.T., Blanch, E.W., Ellis, D.I. & Goodacre, R. (2017) Towards improved quantitative analysis using surface-enhanced Raman scattering incorporating internal isotope labelling. Analytical Methods, 9, 6636 doi:10.1039/C7AY02527K Ellis, D.I., Eccles, R., Xu, Y., Griffen, J., Muhamadali, H., Matousek, P., Goodall, I. & Goodacre, R. (2017) Through-container, extremely low concentration detection of multiple chemical markers of counterfeit alcohol using a handheld SORS device. Scientific Reports, 7, 12082 doi:10.1038/s41598-017-12263-0 Subaihi, A., Trivedi, D.K., Hollywood, K.A., Bluett, M.A., Xu, Y., Muhamadali, H., Ellis, D.I. & Goodacre, R. (2017) Quantitative on-line liquid chromatography-surface-enhanced Raman scattering (LC-SERS) of methotrexate and its major metabolites. Analytical Chemistry 88, 6702-6709. doi:10.1021/acs.analchem.7b00916 Subaihi, A., Muhamadali, H., Mutter, S.T., Blanch, E., Ellis, D.I. & Goodacre, R. (2017) Quantitative detection of codeine in human plasma using surface- enhanced Raman scattering via adaptation of the isotopic labelling principle. Analyst, 142, 1099-1105 doi:10.1039/C7AN00193B Subaihi, A., Almanqur, L., Muhamadali, H., AlMasoud, N., Ellis, D.I., Trivedi, D.K., Hollywood, K.A., Xu, Y. & Goodacre, R. (2016) Rapid, accurate, and quantitative detection of propranolol in multiple human biofluids via surface-enhanced Raman scattering. Analytical Chemistry, 88, 10884-10892 doi:10.1021/acs.analchem.6b02041 AlMasoud, N., Xu, Y., Ellis, D.I., Rooney, P., Turton, J.F. & Goodacre, R. (2016) Rapid discrimination of Enterococcus faecium strains using phenotypic analytical techniques. Analytical Methods 8, 7603-7613 doi:10.1039/C6AY02326F Muhamadali, H., Subaihi, A., Mohammadtaheri, M., Xu, Y., Ellis, D.I., Ramanathan, R., Bansal, V & Goodacre, R. (2016) Rapid, accurate, and comparative differentiation of clinically and industrially relevant microorganisms via multiple vibrational spectroscopic fingerprinting. Analyst, 141, 5127–5136. doi:10.1039/c6an00883f ![]() Ellis, D.I., Muhamadali, H., Allen, D.P., Elliott, C.T. & Goodacre, R. (2016) A flavour of omics approaches for the detection of food fraud. Current Opinion in Food Science, 10, 7-15. doi:10.1016/j.cofs.2016.07.002 ![]() Ellis, D.I., Ellis, J., Muhamadali, H., Xu, Y., Horn, A.B. & Goodacre, R. (2016) Rapid, high-throughput, and quantitative determination of orange juice adulteration by Fourier-transform infrared spectroscopy. Analytical Methods, 8, 5581-5586. doi:10.1039/C6AY01480A Sayqal, A., Xu, Y., Trivedi, D.K., AlMasoud, N., Ellis, D.I., Muhamadali, H., Rattray, N.J.W., Webb, C. & Goodacre, R. (2016) Metabolic analysis of the response of Pseudomonas putida DOT-T1E strains to toluene using Fourier transform infrared spectroscopy and gas chromatography mass spectrometry. Metabolomics 12: 112. doi:10.1007/s11306-016-1054-1 Sayqal, A., Xu, Y., Trivedi, D.K., AlMasoud, N., Ellis, D.I. & Goodacre, R. (2016) Metabolomics analysis reveals the participation of efflux pumps and ornithine in the response of Pseudomonas putida DOT-T1E cells to challenge with propranolol. PLoS ONE 11: e0156509. doi:10.1371/journal.pone.0156509 Ogbaga, C.C., Stepien, P., Dyson, B.C., Rattray, N.J.W., Ellis, D.I., Goodacre, R. & Johnson, G.N. (2016) Biochemical analyses of Sorghum varieties reveal differential responses to drought. PLoS ONE, 11:e0154423 doi:10.1371/journal.pone.0154423 Sayqal, A., Xu, Y., Trivedi, D.K., Almasoud, N., Ellis, D.I. & Goodacre, R. (2016) Metabolic fingerprinting of Pseudomonas putida DOT-T1E strains: Understanding the influence of divalent cations in adaptation mechanisms following exposure to toluene. Metabolites, 6(2),14. doi: 10.3390/metabo6020014 Ellis, D.I. and Goodacre, R. (2016) Detecting food authenticity and integrity. Analytical Methods, 8, 3281-3283 doi:10.1039/C6AY90015A ![]() Trivedi, D.K., Hollywood, K.A., Rattray, N.J.W., Ward, H., Trivedi, D.K. Greenwood, J., Ellis, D.I. & Goodacre, R. (2016) Meat, the metabolites: an integrated metabolite profiling and lipidomics approach for the detection of the adulteration of beef with pork. Analyst, 141, 2155-2164. doi:10.1039/C6AN00108D Muhamadali, H., Weaver, D., Subaihi, A., AlMasoud, N., Trivedi, D.K., Ellis, D.I., Linton, D. & Goodacre, R. (2016) Chicken, beams, and Campylobacter: rapid differentiation of foodborne bacteria via vibrational spectroscopy and MALDI-mass spectrometry, Analyst, 141, 111-122. doi:10.1039/C5AN01945A Muhamadali, H., Xu, Y., Ellis, D.I., Trivedi, D.K., Rattray, N.J.W., Bernaerts, K. & Goodacre, R. (2015) Metabolomics investigation of recombinant mTNFα production in Streptomyces lividans. Microbial Cell Factories, 14:157. doi:10.1186/s12934-015-0350-1
Gromski, P. S., Muhamadali, H., Ellis, D. I., Xu, Y., Correa, E., Turner, M. L. & Goodacre, R. (2015) A tutorial review: Metabolomics and partial least squares-discriminant analysis – a marriage of convenience or a shotgun wedding. Analytica Chimica Acta. 879, 10-23. doi:10.1016/j.aca.2015.02.012 Muhamadali, H., Xu, Y., Ellis, D.I., Allwood, J.W., Rattray, N., Correa, E., AlRabiah, H., Lloyd, J. & Goodacre, R. (2015) Metabolic profiling of Geobacter sulfurreducens during scale-up. Applied and Environmental Microbiology, 81, 3288-3298. doi:10.1128/AEM.00294-15
Gromski, P.S., Xu, Y., Kotze, H.L., Correa, E., Ellis, D.I., Armitage, G., Turner, M.L. & Goodacre, R. (2014) Influence of missing values substitutes on multivariate analysis of metabolomics data. Metabolites, 4(2), 433-452 doi:10.3390/metabo4020433
Correa, E., Sletta, H., Ellis, D.I., Hoel, S., Ertesvåg, H., Ellingsen, T.E., Valla S. & Goodacre, R. (2012) Rapid reagentless quantification of alginate biosynthesis in Pseudomonas fluorescens bacteria mutants using FT-IR spectroscopy coupled to multivariate partial least squares regression, Analytical and Bioanalytical Chemistry, 403(9), 2591-2599.
Ellis, D.I. and Goodacre, R. (2012) Metabolomics-Assisted Synthetic Biology, Current Opinion in Biotechnology, 23: 22-28. Ellis, D.I. (2011) Biospectroscopy at the Manchester Interdisciplinary Biocentre. Bioanalysis. 3(11), 1189-1194. doi:10.4155/bio.11.95 Dunn, W.B., Broadhurst, D., Ellis, D.I.,Brown, M, Halsall, A, O’Hagan, S, Spasic, I, Tseng, A. & Douglas B Kell. (2008) A GC-TOF-MS study of the stability of serum and urine metabolomes during the UK Biobank sample collection and preparation protocols. International Journal of Epidemiology. 37, i23-i30 DOI: 10.1093/ije/dym281 (Full Text) Allwood, J.W., Ellis, D.I. & Goodacre, R. (2008) Metabolomic Analysis of Plants and Plant-Host Interactions: Technology, present status and future potential. Physiologia Plantarum. 132, 117-135. DOI:10.1111/j.1399-3054.2007.01001.x (Full Text) Ellis, D.I., Dunn, W.B., Griffin, J.L., Allwood, J.W. & Goodacre, R. (2007) Metabolic Fingerprinting as a Diagnostic Tool. Pharmacogenomics, 8(9), 1243-1266. (Full Text) DOI: 10.2217/14622416.8.9.1243 Dunn, W.B., Broadhurst, D.I., Deepak, S.M., Buch, M.H., McDowell, G., Spasic, G., Ellis, D.I., Brooks, N., Neyses, L. & Kell D.B. (2007) Serum metabolomics reveals many novel metabolic markers of heart failure, including pseudouridine and 2-oxoglutarate. Metabolomics 3(4), 413-426. DOI: 10.1007/s11306-007-0063-5 (Full Text) Goodacre, R., Roberts, L., Ellis, D.I., Thorogood, D., Reader, S.M., Ougham, H. & King, I. (2007) From phenotype to genotype: whole tissue profiling for plant breeding. Metabolomics, 3(4), 489-501. DOI: 10.1007/s11306-007-0062-6 (Full Text) Deepak, S., Dunn, W.B., Broadhurst, D., Buch, M., McDowell, G., Ellis, D.I., Brooks, N., Kell, D.B. & Neyses, L. (2007) Serum metabolomic analysis successfully discriminates heart failure patients from controls, Heart, 93, A78-A79 Ellis, D.I., Broadhurst, D., Rowland, J.J. & Goodacre, R. (2007) Rapid detection method for microbial spoilage using FT-IR and machine learning. In: Rapid Methods (for Food and Feed Quality Determination) (Eds: van Amerongen, A., Barug, D and Lauwaars, M.) Wageningen Academic Publishers, Wageningen, Netherlands, pp. 73-84 Wilkinson, S.J., Spasic, I. & Ellis, D.I. (2006) Genomes to Systems 3, Metabolomics, 2(3), 165-170. DOI: 10.1007/s11306-006-0030-6 (Full Text) Kenny, L.C., Harding, K.E.L., Ellis, D.I., Broadhurst, D., Dunn, W.B., Kell, D.B. & Baker, P.N. (2006) Rapid high-throughput detection of preeclampsia, Journal of the Society for Gynecologic Investigation, 13(2), 124A-125A Ellis, D.I. and Goodacre, R. (2006) Metabolic fingerprinting in disease diagnosis: biomedical applications of infrared and Raman spectroscopy, Analyst, 131, 875-885. DOI:10.1039/b602376m (Full Text) Ellis, D.I and Goodacre, R. (2006) Quantitative detection and identification methods for microbial spoilage, In Food Spoilage Microorganisms (Ed. Blackburn, C), Woodhead Publishing, Cambridge, UK, pp. 3-27. (Synopsis and Contents) Allwood, J.W., Ellis, D.I., Heald, J., Goodacre, R & Muir, L. (2006) Metabolomic approaches reveal that phosphatidic and phosphatidyl glycerol phospholipids are major discriminatory metabolites in responses by Brachypodium distachyon to challenge by Magnaporthe grisea. The Plant Journal, 46, 351-368. DOI: 10.1111/j.1365-313X.2006.02692.x (Full Text) Underwood, B.R., Broadhurst, D., Dunn, W.B., Ellis, D.I., Michell, A.W., Vacher, C., Mosedale, D.E., Kell, D.B., Barker, R., Grainger, D.J. & Rubinsztein, D.C. (2006) Huntington disease patients and transgenic mice have similar pro-catabolic serum metabolite profiles, Brain, 129(4), 877-886. (Full Text) Zhao, H.J., Parry, R.L., Ellis, D.I., Griffith, G.W. & Goodacre, R. (2006) Rapid differentiation of Streptomyces isolates using Fourier transform infrared spectroscopy, Vibrational Spectroscopy, 40, 213-218. (Full Text) Ellis, D.I., Broadhurst, D., Clarke, S.J. & Goodacre, R. (2005) Rapid identification of closely related muscle foods by vibrational spectroscopy and machine learning. Analyst, 130(12), 1648-1654. (Full Text) Jenkins, T.E., Hayton, D., Ellis, D.I., Bailey, P., Noakes, T.C.Q. & Clark, G.F. (2005) Multi-technique study of silicon dioxide films on 4H-SiC, Recent Research Developments in Physical Chemistry, 8(2005), 1-20. Kenny, L.C., Dunn, W.B., Ellis, D.I., Myers, J., Baker, P.N & the GOPEC Consortium, & Kell, D.B. (2005) Novel biomarkers for pre-eclampsia detected using metabolomics and machine learning, Metabolomics, 1(3), 227-234. (Full Text) Kenny, L.C., Dunn, W.B., Ellis, D.I., Myers, J.E., Robinson, A.E., Kell, D.B. & Baker, P.N. (2005) Novel biomarkers for preeclampsia detected using metabolomics and machine learning. Journal of the Society for Gynecologic Investigation, 12(2), 355 Suppl. S FEB 2005 Kenny, L.C., Dunn, W.B., Ellis, D.I., Myers, J.E., Robinson, A.E., Kell, D.B. & Baker, P.N. (2005) Alterations in placental hemodynamics in growth-restricted transgenic mice. Journal of the Society for Gynecologic Investigation, 12(2), 354 Suppl. S FEB 2005 Dunn, W.B. and Ellis, D.I. (2005) Metabolomics: current analytical platforms and methodologies. Trends in Analytical Chemistry 24(4), 285-294. (Full Text) Brown, M., Dunn, W.B., Ellis, D.I., Goodacre, R., Handl, J., Knowles, J.D., O’Hagan, S., Spasic, I. & Kell, D.B. (2005) A metabolome pipeline: from concept to data to knowledge. Metabolomics 1(1), 39-51. (Full Text) Ellis, D.I., O’Hagan, S., Dunn, W.B., Brown, M. & Vaidyanathan, S. (2004) From genomes to systems. Genome Biology 5(11), 354. (Full Text) Ellis, D.I., Broadhurst, D. & Goodacre, R. (2004) Rapid and quantitative detection of the microbial spoilage of beef by Fourier transform infrared spectroscopy and machine learning. Analytica Chimica Acta 514, 193-201. (Full Text) Naheed N. Kaderbhai, David I. Broadhurst, David I. Ellis, Royston Goodacre & Douglas B. Kell. (2003) Functional genomics via metabolic footprint profiling: Monitoring metabolite secretion by Escherichia coli tryptophan metabolism mutants using FT-IR and Direct Injection Electrospray Mass Spectrometry. Comparitive and Functional Genomics 4, 376-391. (Abstract) (Full Text) Ellis, D.I., Harrigan, G.G. & Goodacre, R. (2003) Metabolic Fingerprinting with Fourier Transform Infrared Spectroscopy. In: Metabolic Profiling: Its Role in Biomarker Discovery and Gene Function Analysis (Eds: Harrigan, G.G. and Goodacre, R.)Kluwer Academic, Boston, 2003, pp. 111-124. (Synopsis and contents and ordering info) Ellis, D.I., Broadhurst, D., Kell, D.B., Rowland, J.J. & Goodacre, R. (2002) Rapid and quantitative detection of the microbial spoilage of meat by Fourier transform infrared spectroscopy and machine learning. Applied and Environmental Microbiology 68 (6), 2822-2828. (PubMed abstract) (Full text) Ellis, D.I. and Goodacre, R. (2001) Rapid and quantitative detection of the microbial spoilage of muscle foods: current status and future trends. Trends in Food Science and Technology 12 (11), 414-424. (Full text) |
Miscellaneous |
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David was educated on the Welsh coast at the University of Wales, Aberystwyth, obtaining a BSc (Hons) in Environmental Science and a PhD in Analytical Biotechnology/Microbiology. After 11 years in rural Wales (three in Pembrokeshire and eight in Ceredigion), he moved to the northwest first working at UMIST then The University of Manchester.
His research involving the rapid and quantitative detection of foodborne bacteria using FT-IR and machine learning has been widely publicised, featuring on BBC TV and radio, at the Science Museum in London, as well as in the national and international press (e.g. Wired). With more recent work on the through-container detection of multiple chemical markers of counterfeit alcohol using handheld SORS also being widely publicised, e.g. Newsweek, Scientific American, The Sunday Times. He has also been Guest Editor for themed-collections in RSC journals such as Analyst, and a reviewer for over 35 academic journals including The Lancet and Chemical Society Reviews. David has one daughter Siân Rae, and on Christmas Eve 2013 became a proud Grandad for the first time with the birth of Emily, and for the second time in June 2017 with the birth of Ellie. Interests include: The great outdoors, travel, reading, art (especially painting, photography, and sculpture), architecture, history, music, eating-out, gigs, gym, yoga, Dhamma, Buddhist meditation, retreats, badminton, walking, cooking, cinema, galleries and museums, abseiling, and photography. |
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