Outputs from C2D2-funded projects

Publications

• Abdul Rahman, S., Bergström, E., Watson, C. J., Wilson, K. M., Ashford, D. A., Thomas, J. R., … Thomas-Oates, J. E. (2014). Filter-Aided N-Glycan Separation (FANGS): A Convenient Sample Preparation Method for Mass Spectrometric N-Glycan Profiling. Journal of Proteome Research, 13(3), 1167–1176. doi:10.1021/pr401043r
• Afsari, F., Christensen, K. V., Smith, G. P., Hentzer, M., Nippe, O. M., Elliott, C. J. H., & Wade, A. R. (2014) Abnormal visual gain control in a Parkinson's Disease model. Human Molecular Genetics, 23(17), 4465–4478. doi:10.1093/hmg/ddu159
• Alden, K. J., Read, M. N., Andrews, P. A. U. L. S., Timmis, J., & Coles, M. C. (2014). Applying spartan to Understand Parameter Uncertainty in Simulations. R Journal.
• Alden, K.J., Andrews, P. S., Viega-Fernandes, H., Timmis, J., & Coles, M. C. (2014). Utilising a simulation platform to understand the effect of domain model assumptions. Natural Computing, 14(1), 99–107. doi:10.1007/s11047-014-9428-7
• Alden, K. J., Andrews, P. S., Polack, F. A. C., Veiga-Fernandes, H., Coles, M. C., & Timmis, J. (2015). Using argument notation to engineer biological simulations with increased confidence. Journal of the Royal Society Interface, 12(105), 20141059. doi:10.1098/rsif.2014.1059
• Allison S.J. & Milner J. (2014). RNA Interference by Single- and Double-stranded siRNA With a DNA Extension Containing a 3' Nuclease-resistant Mini-hairpin Structure. Molecular Therapy. Nucleic Acids, 3(1), e141–. doi:10.1038/mtna.2013.68
• Altink, H. (2014). Fight TB with BCG: mass vaccination campaigns in the British Caribbean, 1951-56. Medical History, 58(4), 475–497. doi:10.1017/mdh.2014.49
• Alty, J. E., Jamieson, S., Lones, M. A., & Smith, S. L. (2012). How slow is too slow? Objective measurement of bradykinesia in Parkinson's disease using novel non-invasive devices. Proc. Int. Congress on Parkinson's Disease and Movement Disorders, 27, suppl. 1, S91-S92.
• Baker, S.C., Shabir, S., Georgopoulos, N.T., Southgate, J. (2016). Ketamine-Induced Apoptosis in Normal Human Urothelial Cells : A Direct, N-Methyl-d-Aspartate Receptor–Independent Pathway Characterized by Mitochondrial Stress.  American Journal of Pathology. Doi:10.1016/j.ajpath.2015.12.014
• Can, T., Faas, L., Ashford, D. A., Dowle A., Thomas, J., O'Toole, P., & Blanco, G. (2014). Proteomic analysis of laser capture microscopy purified myotendinous junction regions from muscle sections. Proteome Science 2014, 12, 25.  doi:10.1186/1477-5956-12-25
• Catenazzi, M. C., Jones, H., Wallace, I., Clifton, J., Chong, J. P., Jackson, M. A., Macdonald, S., Edwards, J., & Moir, J. W. (2014). A large genomic island allows Neisseria meningitidis to utilize propionic acid, with implications for colonisation of the human nasopharynx. Molecular Microbiology, 93(2), 346–355. doi: 10.1111/mmi.12664
• Colonese, A. C., Collins, M. J., Lucquin, A. J. A., Eustace, M., Hancock, Y., De Almeida Rocha Ponzoni, R., Smith, C., Mora, A., DeBalasis, A. P. D., Figuti, L., Wesolowski, V., Plens, C., Eggers, S., Farias, D., Gledhill, A., & Craig, O. E. (2014). Long-term resilience of late Holocene coastal subsistence system in southeastern South America. PLoS One, 9(4), e93854. doi:10.1371/journal.pone.0093854
• Fairhurst, C., Watt, I., Martin, F., Bland, M., & Brackenbury, W. J. (2014). Exposure to sodium channel-inhibiting drugs and cancer survival: protocol for a cohort study using the Qresearch primary care database. BMJ Open 4(11), e006604. doi: 10.1136/bmjopen-2014-006604
• Fox, J. M., Newton, R., Bedaj, M., Keding, A., Molyneux, E., Carpenter, L. M., Martin, F., & Mutalima, N. (2015) Prevalence of hepatitis C virus in mothers and their children in Malawi Tropical Medicine & International Health, 20(5), 638–642. doi: 10.1111/tmi.12465
• Haak, K. V., Cornelissen, F. W., & Morland, A. B. (2012). Population receptive field dynamics in human visual cortex. PLoS One,7(5), e37686. doi:10.1371/journal.pone.0037686
• Hall, A. (2014). Representing chronic disorders of consciousness: voice in Isabel Allende’s Paula. Literature and Medicine, 32(1), 133-147.
• Halliday, S., Kitzinger, C., & Kitzinger, J. (2013). Law in everyday life and death: A socio-legal study of chronic disorders of consciousness. Legal Studies (Society of Legal Scholars), 35(1), 55–74. doi:10.1111/lest.12042
• Higgins, G., Roper, K. M., Watson, I. J., Blackhall, F. H., Rom, W. N., Pass, H. I., Ainscough, J. F. X., & Coverley, D. (2012). Variant Ciz1 is a circulating biomarker for early-stage lung cancer. Proceedings of the national academy of sciences of the united states of america, 109(45), E3128-E3135, doi: 10.1073/pnas.1210107109
• Hindle, S., Afsari, F., Stark, M., Middleton, C. A., Evans, G. J. O., Sweeney, S. T., & Elliott, C. J. H. (2013). Dopaminergic expression of the Parkinsonian gene LRRK2-G2019S leads to non-autonomous visual neurodegeneration, accelerated by increased neural demands for energy. Human Molecular Genetics, 22(11), 2129-2140, doi: 10.1093/hmg/ddt061
• Hindle, S. J., & Elliott, C. J. H. (2013). Spread of neuronal degeneration in a dopaminergic, Lrrk-G2019S model of Parkinson disease. Autophagy, 9(6), 936–938. doi:10.4161/auto.24397
• Hirst, A.M., Simms M.S., Vann V.M., Maitland, N. J., O’Connell, D., & Frame, F.N. (2015). Low-temperature plasma treatment induces DNA damage leading to necrotic cell death in primary prostate epithelial cells. British Journal of Cancer, 112(9), 1536–1545. doi:10.1038/bjc.2015.113
• Hirst, A.M., Frame, F.N., Maitland, N. J., & O’Connell, D. (2014). Low Temperature Plasma Causes Double-Strand Break DNA Damage Primary Epithelial Cells Cultured from a Human Prostate Tumour. IEEE Transactions on Plasma Science, Plasma Science, 42(10), 2740-2741. doi: 10.1109/TPS.2014.2351453
• Hirst, A.M., Frame, F.N., Maitland, N. J., & O’Connell, D. (2014). Low Temperature Plasma – A Novel Focal Therapy for Localized Prostate Cancer? BioMed Research International, 878319. doi: 10.1155/2014/878319
• Holland, S., Kitzinger, C., & Kitzinger, J. (2014). Death, treatment decisions and the permanent vegetative state: evidence from families and experts. Medicine, Health Care and Philosophy, 17(3), 413–423. doi: 10.1007/s11019-013-9540-y
• Jacobs, R., Chalkley, M. J., Aragon Aragon, M. J. M., Boehnke, J. R., Clark, M., Moran, V., & Gilbody, S. M. (2016). Funding of mental health services: Do available data support episodic payment? (pp. 1-82). (CHE Research Paper; No. 137). York, UK: Centre for Health Economics.
• Kidger, E., Stahlschmidt, J., Garthwaite, M., Fulford, S., Southgate, J., Baker, S.C. (2015). A Rare Urachal Cyst in a Case of Ketamine-induced Cystitis Provides Mechanistic Insights. Urology. Doi: 10.1016/j.urology.2015.12.015
• Kitzinger, C., & Kitzinger, J. Grief, anger and despair in relatives of severely brain injured patients: responding without pathologising. (2014). Clin Rehabil. 28(7), 627-631. [Epub ahead of print]
• Kitzinger, C., & Kitzinger, J. ‘This in-between’ – how families talk about death in relation to disorders of consciousness. In L. Van Brussels & N. Carpentier (Eds.), The Social Construction of Death: interdisciplinary perspectives (pp. 239-238). Palgrave MacMillan.
• Kitzinger, C., & Kitzinger, J. (2013). The 'window of opportunity' for death after severe brain injury: Family experiences. Sociology of Health and Illness: A Journal of Medical Sociology, 35(7), 1095-1112. doi:10.1111/1467-9566.12020
• Kitzinger, C., & Ktizinger J. (2013). Withdrawing artificial nutrition and hydration from minimally conscious and vegetative patients: family perspectives. Journal of Medical Ethics, 41(2), 157–160. doi:10.1136/medethics-2013-101799
• Kitzinger, C., & Kitzinger, J. (2013). Evidence Submitted To: HOUSE OF LORDS SELECT COMMITTEE ON THE MENTAL CAPACITY ACT 2005
• Kitzinger, C., & Kitzinger, J. (2013). U.K.’s Landmark Case on Withholding Treatment Affirms the Importance of Patients’ Values. Bioethics Forum
• Kontopantelis, E., Springate, D., Ashworth, M., Webb, R., Buchan, I., & Doran T. (2015). Investigating the relationship between quality of primary care and premature mortality in England: a spatial whole-population study. British Medical Journal, 350, h904. doi:10.1136/bmj.h904
• Lacy, S., Lones, M. A., Smith, S. L., Alty, J. E., Jamieson, D. R. S., Possin, K. L., & Schuff, N. (2013). Characterisation of Movement Disorder in Parkinson’s Disease using Evolutionary Algorithms. in  Blum, C. & Alba, E. (eds.). Proceedings of the 2013 Genetic and Evolutionary Computation Conference (GECCO). ACM Digital Library, 1479-1485.
• Latchem, J., Kitzinger, J., & Kitzinger, C (2015). Physiotherapy for vegetative and minimally conscious state patients: family perceptions and experiences. Disability and Rehabilitation, 11, 1-8. doi:10.3109/09638288.2015.1005759
• Lones, M. A., Smith, S. L., & Tyrrell, A. (2012). Evolving Computational Dynamical Systems to Recognise Abnormal Human Motor Function. -. Paper presented at 9th International Workshop on Information Processing in Cells and Tissues, Cambridge, United Kingdom
• Lones, M. A., Smith, S. L., Tyrrell, A., Alty, J. E., & Jamieson, S. (2013). Characterising Neurological Time Series Data using Biologically-Motivated Networks of Coupled Discrete Maps. Biosystems, 112(2), 94-101, doi: 10.1016/j.biosystems.2013.03.009
• Lones, M. A., Alty, J. E., Lacy, S., Jamieson, S., Possin, K., Schuff, N., & Smith, S. L. (2013). Evolving Classifiers to Inform Clinical Assessment of Parkinson's Disease. IEEE Transactions on Evolutionary Computation, (99), doi: 10.1109/TEVC.2013.2281532
• Medcalf, A., & Bhattacharya, S. (Eds.). (2014). Tropical Diseases: Lessons from History. Orient Black Swan
• Medcalf, A., Altink, H., Saavedra, M., & Bhattacharya, S. (Eds.). (2013). Tuberculosis: A Short History. Orient Black Swan
• Murray, J., Nowak, D., Pukenas, L., Azhar, R., Guillorit, M., Wälti, C., Critchley, K., Johnson, S., & Bon, R.S. (2014). Solid phase synthesis of functionalised SAM-forming alkanethiol-oligoethyleneglycols. Journal of Materials Chemistry. B, Materials for Biology and Medicine, 2(24), 3741–3744. doi:10.1039/C4TB00573B
• Pauletto, S., Cambridge, H., & Susini, P. (2016). Data Sonification and Sound Design in Interactive Systems. International Journal of Human-Computer Studies, 85.
• Read, M. N., Andrews, P. A. U. L. S., Timmis, J., & Kumar, V. (2014). Modelling biological behaviours with the unified modelling language: an immunological case study and critique. Journal of the Royal Society Interface, 11(99), 20140704. doi:10.1098/​rsif.2014.0704
• Read, M. N., Andrews, P. S., Timmis, J., Williams, R. A., Greaves, R. B., Sheng, H., Coles, M. C., & Kumar, V. (2013). Determining Disease Intervention Strategies Using Spatially Resolved Simulations. PloS one, 8(11), e80506. doi: 10.1371/journal.pone.0080506
• Saunders, B., Kitzinger, J., & Kitzinger, C. (2014). Participant Anonymity in the Internet Age: From Theory to Practice. Qualitative Research in Psychology, 12(2), 125–137. doi:10.1080/14780887.2014.948697
• Tipples, J., Brattan, V. C., & Johnston P. (2013). Neural Bases for Individual Differences in the Subjective Experience of Short Durations (Less than 2 Seconds). PLOS ONE, 8(1), e54669. Tipples, J., Brattan, V., & Johnston, P. (2013). Neural Bases for Individual Differences in the Subjective Experience of Short Durations (Less than 2 Seconds). PLoS ONE, 8(1), e54669. doi:10.1371/journal.pone.0054669
• Wade, A., & Elliott, C. (2014). Could the detection of visual disturbances associated with Parkinson’s disease genes in flies lead to new treatments for the disease? Neurodegenerative disease management, 4(4), 291-3. doi:10.2217/nmt.14.30.
• Walus, B., Pauletto, S. and Mason-Jones, A. (2016). Sonification and Music as Support to the Communication of Alcohol-Related Health Risks to Young People. Journal on Multimodal User Interfaces. DOI: 10.1007/s12193-016-0220-0
• Warinner, C., Rodrigues, J. F. M., Vyas, R., Trachsel, C., Shved, N., Grossmann, J., Radini, A., Hancock, Y., Tito, R. Y., Fiddyment, S., Speller, C., Hendy, J., Charlton, S., Luder, H. U., Salazar-García, D. C., Eppler, E., Seiler, R., Hansen, L. H., Castruita, J. A. S., Barkow-Oesterreicher, S., Teoh, K. Y., Kelstrup, C. D., Olsen, J. V., Nanni, P., Kawai, T., Willerslev, E., von Mering, C., Lewis, C. M., Collins, M. J., Gilbert, M. T. P., Rühli, F., & Cappellini, E. (2014). Pathogens and host immunity in the ancient human oral cavity. Nature Genetics, 46(4), 336-44. doi: 10.1038/ng.2906
• Warinner, C., Speller, C., & Collins, M. J. (2015). A new era in palaeomicrobiology: prospects for ancient dental calculus as a long-term record of the human oral microbiome. Philosophical Transactions of the Royal Society B: Biological Sciences, 370(1660), 20130376. doi:10.1098/rstb.2013.0376
• West, R. J.H.,  Furmston, R., Williams, C. A. C., & Elliott, C. J. H. (2015). Neurophysiology of Drosophila Models of Parkinson's Disease. Parkinsons' Disease, 2015, 381281. doi:10.1155/2015/381281
• Ziesemer, K. A., Mann, A. E., Sankaranarayanan, K., Schroeder, H., Ozga, A. T., Brandt, B. W., ... Warinner, C. (2015). Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification. Scientific Reports, 5, 1-19. doi: 10.1038/srep16498