Dr David Ellis’ Homepage

Dr David Ian Ellis
Senior Experimental Officer
Manchester Institute of Biotechnology
University of Manchester
131, Princess St
Manchester M1 7DN

Dr David Ellis

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Dr David Ian Ellis

Manchester Institute of Biotechnology, The University of Manchester, 131, Princess St, Manchester M1 7DN


ORCID iD iconorcid.org/0000-0002-7633-7019

Google Scholar citations


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.

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 chemometricsFood 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 principleAnalyst142, 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 scatteringAnalytical 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 techniquesAnalytical 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 fraudCurrent Opinion in Food Science, 10, 7-15. doi:10.1016/j.cofs.2016.07.002
OJ cover MethodsRSC 2016small
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 spectroscopyAnalytical 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 spectrometryMetabolomics 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 propranololPLoS 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

Ellis, D.I., Muhamadali, H., Haughey, S.A., Elliott, C.T. & Goodacre, R. (2015) Point-and-shoot: rapid quantitative detection methods for on-site food fraud analysis – moving out of the laboratory and into the food supply chainAnalytical Methods. 7, 9401-9414. doi:10.1039/C5AY02048D

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

Dunn, W.B., Lin, W., Broadhurst, D., Begley, P., Brown, M., Zelena, E., Vaughn, A.A., Halsall, A., Harding, N., Knowles, J.D., Francis-McIntyre, S., Tseng, A., Ellis, D.I., O’Hagan, S., Aarons, G., Boben, B., Chew-Graham, S., Moseley, C., Potter, P., Winder, C.L., Potts, C., Thornton, P., McWhirter, C., Zubair, M., Pan, M., Burns, A., Cruickshank, J.K., Jayson, G.C., Purandare, N., Wu, F.C.W., Finn, J.D., Haselden, J.N., Nicholls, A.W., Wilson, I.D., Goodacre, R., Kell, D.B. (2015) Molecular phenotyping of a UK population: defining the human serum metabolome. Metabolomics, 11(1), 9-26. doi:10.1007/s11306-014-0707-1

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

Gromski, P., Xu, Y., Correa, E., Ellis, D.I., Turner, M. & Goodacre, R. (2014) A comparative investigation of modern feature selection and classification approaches for the analysis of mass spectrometry dataAnalytica Chimica Acta, 829, 1-8 doi:10.1016/j.aca.2014.03.039

Analyst Cover
Ellis, D.I., Cowcher, D.P., Ashton, L., O’Hagan, S. & Goodacre, R. (2013) Illuminating disease and enlightening biomedicine: Raman spectroscopy as a diagnostic tool. Analyst, 138(14), 3871-3884 doi:10.1039/C3AN00698K

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.

CSR Cover
Ellis, D.I., Brewster, V.L., Dunn, W.B., Allwood, J.W., Golovanov, A. & Goodacre, R. (2012) Fingerprinting food: current technologies for the detection of food adulteration and contamination. Chemical Society Reviews, 41, 5706–5727. doi:10.1039/c2cs35138b

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)

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, DhammaBuddhist meditation, retreats, badminton, walking, cooking, cinema, galleries and museums, abseiling, and photography.

Contact Details
If you’d like to contact me, please use the following contact details:

E-mail: D.Ellis@manchester.ac.uk
Address: School of Chemistry
Manchester Institute of Biotechnology
University of Manchester
131, Princess St
Manchester M1 7DN
United Kingdom