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Publications

Recent journal papers with authors from the Bioinformatics & Statistics team are listed here by year.

 

Journal Papers - 2012

  • Just published Shintu L., Baudoin R., Navratil V., Prot J. M., Pontoizeau C., Defernez M., Blaise B., Domange C., Pery A. R. R., Toulhoat P., Legallais C., Brochot C., Leclerc E., Dumas M. E.(2012) Metabolomics-on-a-chip and predictive systems toxicology in microfluidic bioartificial organs Analytical Chemistry 84 1840-1848
  • King M. J., Brima E. I., Dainty J. R., Barrett D. A., Wright A. J., Willis G., Finglas P. M.(2012) Estimation of the folate apparent volume of distribution in humans Journal of Nutrition 142 389-395
  • OPEN ACCESS Tapp H. S., Radonjic M., Kemsley E. K., Thissen U. (2012) Evaluation of multiple variate selection methods from a biological perspective: a nutrigenomics case study. Genes & Nutrition E-print DOI: 10.1007/s12263-012-0288-4
  • OPEN ACCESS BOOK CHAPTER Kemsley E. K., Defernez M. (2012) Relating surface electromyograms of the facial muscles during mastication to the mechanical and sensory properties of foodstuffs in Applications of EMG in Clinical and Sports Medicine Intech pp329 - 358 View & download at Intech

Journal Papers - 2011

  • Le Gall G., Noor S., Ridgway K., Scovell L., Crawford J., Johnson I. T., Colquhoun I. J., Kemsley E. K., Narbad A.(2011) Metabolomics of faecal extracts detects altered metabolic activity of gut microbiota in ulcerative colitis and irritable bowel syndrome Journal of Proteome Research 10 4208-4218 E-print doi: 10.1021/pr2003598 View abstract at J Prot Res
  • Rahmioglu N., Le Gall G., Heaton J., Kay K., Smith N., Colquhoun I. J., Ahmadi K., Kemsley E. K.(2011) Prediction of variability in CYP3A4 induction using a combined 1H NMR metabonomics and targeted UPLC/MS approach Journal of Proteome Research. 10 (6) 2807-2816. E-print doi: 10.1021/pr200077n View abstract at PubMed
  • Powers H. J., Hill M. H., Mushtaq S., Dainty J. R., Majsak-Newman G., Williams E. A.(2011) Correcting a marginal riboflavin deficiency improves haematological status in young women (RIBOFEM) American Journal of Clinical Nutrition 93 1274-1284 View abstract at PubMed
  • Johnson P. E., Aldick T., Giosafatto C. V. L., Watson A., Mills E. N. C., Baumgartner S., Bessant C., Heick J., Mamone G., O’Connor G., Poms R., Popping B., Reuter A., Ulberth F., Monaci L. (2011) Current Perspectives and Recommendations for the Development of Mass Spectrometry Methods for the Determination of Allergens in Foods Journal of AOAC International 94 1026-1033
  • Smit H., Kemsley E. K., Tapp H. S., Henry C. J. K.(2011) Does prolonged chewing reduce food intake? Fletcherism revisited. Appetite. 57 (1) 295-8. E-print doi:10.1016/j.appet.2011.02.003. View abstract at PubMed
  • Sancho A. I., Wangorsch A., Jensen J., Watson A. D., Alexeev Y., Johnson P. E., Reese G., Ballmer-Weber B., Hoffmann-Sommergruber K., Skov P., Vieths S., Mills E. N. C., Mackie A. R., Neubauer A.(2011) Responsiveness of the major birch allergen bet v 1 scaffold to the gastric environment: impact on structure and allergenic activity. Molecular Nutrition and Food Research 55 1690-1699
  • Johnson P. E., Philo M., Mills E. N. C., Watson A. D.(2011) Rapid fingerprinting of milk thermal processing history by intact mass spectrometry with non-denaturing chromatography Journal of Agricultural and Food Chemistry 59 12420-12427
  • Tapp H. S., Penfold R. A., Kemsley E. K.(2011) Tinylvr: a utility for viewing single predictor multivariate models in terms of a two factor latent vector model Chemometrics and Intelligent Laboratory Systems 105 19-26
  • Roe M. A., Collings R., Dainty J. R., Fairweather-Tait S. J.(2011) Low-pH cola beverages do not affect women’s iron absorption from a vegetarian meal Journal of Nutrition 141 805-808
  • Lo Curto A., Pitino I., Mandalari G., Dainty J., Faulks R. M., Wickham M.(2011) Survival of probiotic lactobacilli in the upper gastrointestinal tract using an in vitro gastric model of digestion. Food Microbiology View abstract on ScienceDirect

Journal Papers - 2010

  • Noor S. O., Ridgway K., Scovell L., Kemsley E. K., Lund E. K., Crawford J., Johnson I. T., Narbad A. (2010) Ulcerative colitis and irritable bowel patients exhibit distinct abnormalities of the gut microbiota BMC Gastroenterology 10 134. Highly Accessed Open Access: view the article at biomedcentral.
  • Defernez M., Mandalari G., Mills E. N. C.(2010) A quantitative assessment of multi-laboratory reproducibility of SDS-PAGE assays: Digestion pattern of beta-casein and beta-lactoglobulin under simulated conditions Electrophoresis 31 2838-2848
  • Rowe G., Rawsthorne D., Scarpello T., Dainty J. R.(2010) Public engagement in research funding: A study of public capabilities and engagement methodology Public Understanding of Science 19 225-239
  • Tourlomousis P., Kemsley E. K., Ridgway K. P., Toscano M. J., Humprey T. J., Narbad A.(2010) PCR-denaturing gradient gel electrophoresis of complex microbial communities: a two-step approach to address the effect of gel-to-gel variation and allow valid comparisons across a large data set Microbial Ecology 59 776-786
  • Hurst R., Armah C. N., Dainty J. R., Hart D. J., Teucher B., Goldson A. J., Broadley M. R., Motley A. K., Fairweather-Tait S. J.(2010) Establishing optimal selenium status: results of a randomised, double-blind, placebo-controlled trial American Journal of Clinical Nutrition 91 923-931
  • Alston M., Seers J., Hinton J. C. D., Lucchini S.(2010) BABAR: an R package to simplify the normalisation of common reference design microarray-based transcriptomic datasets BMC Bioinformatics 11 73
  • Belshaw N. J., Pal N., Tapp H. S., Dainty J. R., Lewis M. P. N., Williams M. R., Lund E. K., Johnson I. T.(2010) Patterns of DNA methylation in individual colonic crypts reveal aging and cancer-related field defects in the morphologically normal mucosa Carcinogenesis 31 1158-1163
  • Sarria B., Dainty J. R.(2010) Comparison of faecal monitoring and area under the curve techniques to determine iron absorption in humans using stable isotope labelling Journal of Trace Elements in Medicine and Biology 24 157-160

Journal Papers - 2009

  • Bennett J. M. H., Rhodes M., Malcolm P. N., Dainty J. R., Simpson B. W., Johnson I. T., Boddy A. P., Wickham M. S. J., Williams S.(2009) Assessment of the relationship between post-meal satiety, gastric volume and gastric emptying after Swedish adjustable gastric banding. a pilot study using magnetic resonance imaging to assess postsurgery gastric function Obesity Surgery 19 757-763
  • Roe M. A., Dainty J. R., Collings R., Swinkels D. W., Fairweather-Tait S. J.(2009) Plasma hepcidin levels significantly predict inter-individual variation in iron absorption in healthy men American Journal of Clinical Nutrition 89 1088-1091
  • Mounet F., Moing A., Garcia V., Petit J., Maucourt M., Deborde C., Bernillon S., Le Gall G., Colquhoun I. J., Defernez M., Giraudel J. L., Rolin D., Rothan C., Lemaire-Chamley M.(2009) Gene and metabolite regulatory network analysis of early developing fruit tissues highlights new candidate genes for the control of tomato fruit composition and development Plant Physiology 149 1505-1528
  • Mandalari G., Adel-Patient K., Barkholt V., Baro C., Bennett L., Bublin M., Gaier S., Graser G., Ladics G. S., Mierzejewska D., Vassilopoulou E., Vissers Y. M., Zuidmeer L., Rigby N. M., Salt L., Defernez M., Mulholland F., Mackie A. R., Wickham M. S. J., Mills E. N. C.(2009) In vitro digestibility of beta-casein and beta-lactoglobulin under simulated human gastric and duodenal conditions: a multi-laboratory evaluation Regulatory Toxicology and Pharmacology 55 372-381
  • Pope G. A., MacKenzie D. A., Defernez M., Roberts I. N.(2009) Metabolic footprinting for the study of microbial biodiversity Cold Spring Harbor Protocols 4 Article: pdb.prot5222
  • Chambers K. F., Bacon J. R., Kemsley E. K., Mills R., Ball R., Mithen R. F., Traka M.(2009) Gene expression profile of primary prostate epithelial and stromal cells in response to sulforaphane or iberin exposure Prostate 69 1411-1421
  • Colquhoun I. J., Defernez M., Hill L., Kemsley E. K.(2009) Recent developments in techniques and applications of metabolic profiling Bioanalysis 1 1523-1526
  • Brett G. M., Hollands W., Needs P. W., Teucher B., Dainty J. R., Davis B. D., Brodbelt J. S., Kroon P. A.(2009) Absorption, metabolism and excretion of flavanones from single portions of orange fruit and juice and effects of anthropometric variables and contraceptive pill use on flavanone excretion British Journal of Nutrition 101 664-675
  • Van der Hee R. M., Miret S., Slattenaar M., Duchateau G. S. M., Rietveld A. G., Wilkinson J. E., Quail P. J., Berry M. J., Dainty J. R., Teucher B., Fairweather-Tait S. J.(2009) Calcium absorption from fortified ice cream formulations compared with calcium absorption from milk Journal of the American Dietetics Association 109 830-835
  • McLeod G., Clelland K., Tapp H. S., Kemsley E. K., Wilson R. H., Poulter G., Coombs D., Hewitt C. J.(2009) A comparison of variate pre-selection methods for use in partial least squares regression: a case study on NIR spectroscopy applied to monitoring beer fermentation. Journal of Food Engineering 90 300-307
  • Ioannides Y., Seers J., Defernez M., Raithatha C., Howarth M. S., Smith A. C., Kemsley E. K.(2009) Electromyography of the masticatory muscles can detect variation in the mechanical and sensory properties of apples Food Quality and Preference 20 203-215
  • Kemsley E. K., Tapp H. S.(2009) OPLS filtered data can be obtained directly from non-orthogonalized PLS1 Journal of Chemometrics 23 263-264
  • Hill M. H. E., Mushtaq S., Williams E. A., Dainty J. R., Powers H. J.(2009) Study protocol: Randomised controlled trial to investigate the functional significance of marginal riboflavin status in young women in the UK (Ribofem) BMC Public Health 9 Article 90
  • Tapp H. S., Kemsley E. K.(2009) Notes on the practical utility of OPLS Trends in Analytical Chemistry 28 1322-1327
  • Pot G. K., Majsak-Newman G., Geelen A., Harvey L. J., Nagengast F. M., Wittemen J. M., van de Meeberg P. C., Timmer R., Tan A., Wahab P. J., Hart A. R., Williams M. P., Przybylska-Phillips K., Dainty J. R., Schaafsma G., Kampman E., Lund E. K.(2009) Fish consumption and markers of colorectal cancer risk: a multicentre randomized controlled trial American Journal of Clinical Nutrition 90 354-361

Journal Papers - 2008

  • Hollands W., Brett G. M., Dainty J. R., Teucher B., Kroon P. A.(2008) Urinary excretion of strawberry anthocyanins is dose-dependent for physiological oral doses of fresh fruit Molecular Nutrition and Food Research 52 1097-1105
  • Heaton S. J., Eady J. J., Parker M. L., Gotts K. L., Dainty J. R., Fairweather-Tait S. J., McArdle H. J., Srai K. S., Elliott R. M.(2008) The use of bewo cells as an in vitro model for placental iron transport American Journal of Physiology - Cell Physiology 295 C1445-53
  • Armah C. N. , Sharp P. , Mellon F. A. , Pariagh S. , Lund E. K. , Dainty J. R. , Teucher B. , Fairweather-Tait S. J. (2008) L-alpha-glycerophosphocholine contributes to meat's enhancement of nonheme iron absorption Journal of Nutrition 138 873-877
  • Teucher B. , Dainty J. R. , Spinks C. A. , Majsak-Newman G. , Berry D. J. , Hoogewerff J. A. , Foxall R. J. , Jakobsen J. , Cashman K. D. , Flynn A. , Fairweather-Tait S. J. (2008) Sodium and bone health: the impact of moderately high and low salt intakes on calcium metabolism in postmenopausal women Journal of Bone Mineral Research 23 1477-1485
  • MacKenzie D. A. , Defernez M. , Dunn W. B. , Brown M. , Fuller L. J. , Seco de Herrera S. R. M. , Guenther A. , James S. A. , Eagles J. , Philo M. , Goodacre R. , Roberts I. N. (2008) Relatedness of medically important strains of Saccharomyces cerevisiae as revealed by phylogenetics and metabolomics Yeast 25 501-512
  • Sancho A. I., Gillabert M., Tapp H., Shewry P. R., Skeggs P. K., Mills E. N. C. (2008) The effect of environmental stress during grain filling on the soluble proteome of wheat (Triticum aestivum) endosperm Journal of Agriculture and Food Chemistry 56 5386-5393
  • Belshaw N. J., Elliott G. O., Foxall R. J., Dainty J. R., Pal N., Coupe A., Garg D., Bradburn D. M., Mathers J. C., Johnson I. T. (2008) Profiling cpg island field-methylation in both morphologically normal and neoplastic human colonic mucosa British Journal of Cancer 99 136-142
  • Tapp H. S., Kemsley E. K. (2008) Optimizing the efficiency of cross-validation in linear discriminant analysis through selective use of the Sherman-Morrison-Woodbury inversion formula Journal of Chemometrics 22 419-421

Journal Papers - 2007

  • Wright A. J. A. , Dainty J. R. , Finglas P. M. (2007) Folic acid metabolism in humans revisited: potential implications for proposed mandatory folic acid fortification in the UK British Journal of Nutrition 98 667-675
  • Teucher B. , Skinner J. , Skidmore P. M. L. , Cassidy A. , Fairweather-Tait S. J. , Hooper L. , Roe M. A. , Foxall R. J. , Oyston S. L. , Cherkas L. F. , Perks U. C. , Spector T. D. , MacGregor A. J. (2007) Dietary patterns and heritability of food choice in a UK female twin cohort Twin Research 10 734-748
  • Chen Y-M., Teucher B., Tan X-Y., Dainty J. R., Lee K. K. C., Woo J. L. F., Ho S. C. (2007) Calcium absorption in postmenopausal Chinese women: a randomized crossover intervention study British Journal of Nutrition 97 160-166
  • McCann M. C. , Defernez M. , Urbanowicz B. R. , Tewari J. , Langewisch T. , Olek A. , Wells B. , Wilson R. , Carpita N. C. (2007) Neural network analyses of infrared spectra for classifying cell wall architectures Plant Physiology 143 1314-1326
  • Harvey L. J. , Dainty J. R. , Hollands W. J. , Bull V. J. , Hoogewerff J. A. , Foxall R. J. , Fairweather-Tait S. J. (2007) Effect of high dose iron supplements on fractional zinc absorption and status in pregnant women American Journal of Clinical Nutrition 85 131-136
  • Roe M. A. , Spinks C. , Heath A. L. M. , Harvey L. J. , Foxall R. , Wimperis J. , Wolf C. , Fairweather-Tait S. J. (2007) Serum prohepcidin concentration: no association with iron absorption in healthy men; and no relationship with iron status in men carrying HFE mutations, hereditary hemochromatosis patients undergoing phlebotomy treatment, or pregnant women British Journal of Nutrition 97 544-549
  • Venelinov T. I. , Beattie J. H. , Dainty J. R. , Hollands W. J. , Fairweather-Tait S. J. , Harvey L. J. (2007) Stable isotope pilot study of exchangeable copper kinetics in human blood plasma Journal of Trace Elements in Medicine and Biology 21 138-140
  • Pope G. A. , MacKenzie D. A. , Defernez M. , Aroso M. A. M. , Fuller L. J. , Mellon F. , Dunn W. , Brown M. , Goodacre R. , Kell D. B. , Marvin M., Louis E. J., Roberts I. N. (2007) Metabolic footprinting as a tool for discriminating between brewing yeasts Yeast 24 667-679
  • Dainty J. R. , Bullock N. R. , Hart D. J. , Hewson A. T. , Turner R. , Finglas P. M. , Powers H. J. (2007) Quantification of the bioavailability of riboflavin from foods using stable isotope labels and kinetic modelling American Journal of Clinical Nutrition 85 1557-1564
  • Kemsley E. K. , Le Gall G. , Watson A. D. , Harvey L. J. , Tapp H., Dainty J. R., Colquhoun I. J. (2007) Multivariate techniques and their application in nutrition: a metabolomics case study British Journal of Nutrition 98 Jan 14
  • Ioannides Y., Raithatha C. A., Howarth M. S., Defernez M., Kemsley E. K., Smith A. C. (2007) Texture analysis of red delicious apples: towards multiple measurements on individual fruit Food Quality and Preference 18 825-833
  • Defernez M. , Foxall R. J. , O'Malley C. J. , Montague G. , Ring S. M. , Kemsley E. K. (2007) Modelling beer fermentation variability Journal of Food Engineering 83 167-172
  • Kemsley E. K. , Tapp H. S. , Binns R. , Mackin R. O. , Peyton A. J. (2007) Feasibility study of NIR diffuse optical tomography on agricultural produce Postharvest Biology and Technology 48 223-230

Journal Papers - 2006

  • Witthoft C. W., Dainty J. R., Arkbage K., Johansson M., Lundin E., Berglund G., Zhang J. X., Lennernas H. (2006) Folate absorption from folate fortified and processed foods using a human ileostomymodel British Journal of Nutrition 95 181-187
  • Piggott R. B., Beckert M., Foxall R., Smith A. C. (2006) The use of image analysis in observing mechanically deforming notched and un-notched onion epidermal cellular structures Journal of the Science of Food and Agriculture 86 623-633
  • Olias R., Maldonado B., Radreau P., Le Gall G., Mulholland F., Colquhoun I. J., Kemsley E. K. (2006) Sodium dodecyl sulfate-polyacrylamide gel electrophoresis of proteins in dry-cured hams: data registration and multivariate analysis across multiple gels Electrophoresis 27 (7) 1288-1299
  • Teucher B. , Majsak-Newman G. , Dainty J. R. , McDonagh D. , FitzGerald R. J. , Fairweather-Tait S. J. (2006) Calcium absorption is not increased by caseinophosphopeptides American Journal of Clinical Nutrition 84 162-166
  • Sancho A. I. , Foxall R. , Rigby N. M. , Browne T. , Waldron K. W. , Mills E. N. C. (2006) Maturity and storage influence on the apple (Malus domestica) allergen MAL D3, a non-specific lipid transfer protein Journal of Agricultural and Food Chemistry 54 5098-5104
  • Sancho A. I. , Foxall R. , Browne T. , Dey R. , Zuidmeer L. , Waldron K. W. , van Ree R. , Hoffmann K. , Laimer M. , Mills E. N. C. (2006) Effect of postharvest storage on the expression of the apple allergen MAL D 1 Journal of Agricultural and Food Chemistry 54 5917-5923

Journal Papers - 2005

  • Harvey L. J., Dainty J. R., Hollands W. J., Bull V. J., Beattie J. H., Venilov T. I., Hoogewerff J. A., Davies I. M., Fairweather-Tait S. J. (2005) Use of mathematical modeling to study copper metabolism in humans American Journal of Clinical Nutrition 81 807-813
  • Roe M. A., Heath A. M., Oyston S. L., Macrow C., Hoogewerff J. A., Foxall R. J., Dainty J. R., Majsak-Newman G., Willis G., Fairweather-Tait S. J. (2005) Iron absorption in male C282Y heterozygotes American Journal of Clinical Nutrition 81 814-821
  • Harvey L. J., Armah C., Dainty J. R., Foxall R. J., Lewis D. J., Langford N. J., Fairweather-Tait S. J. (2005) Impact of menstrual blood loss and diet on iron deficiency among women in the UK British Journal of Nutrition 94 557-564
  • Eady J. J., Wortley G.M., Wormstone Y. M., Hughes J. C., Astley S. B., Foxall R. J., Doleman J. F., Elliott R.M. (2005) Variation in gene expression profiles of peripheral blood mononuclear cells from healthy volunteers Physiological Genomics 22 402-411

 

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