Genomes and Genes
University of Oxford
Organization: University of Oxford
- Reticular alignment: a progressive corner-cutting method for multiple sequence alignmentAdrienn Szabó
Computer and Automation Research Institute, Hungarian Academy of Sciences, Lágymányosi u 11, 1111 Budapest, Hungary
BMC Bioinformatics 11:570. 2010..The program contains a threshold parameter on which the size of the network depends. The larger the threshold parameter and thus the network, the deeper the search in the alignment space for better scored alignments...
- Alternative activation of macrophages: an immunologic functional perspectiveFernando O Martinez
Sir William Dunn School of Pathology, University of Oxford, Oxford OX1 3RE, United Kingdom
Annu Rev Immunol 27:451-83. 2009..The evidence for in vivo alternative activation of macrophages is also analyzed, with nematode infection as prototypic disease. Finally, we revisit the concept of macrophage activation in the context of the immune response...
- The prevalence of mental disorders among the homeless in western countries: systematic review and meta-regression analysisSeena Fazel
Department of Psychiatry, University of Oxford, Warneford Hospital, Oxford, United Kingdom
PLoS Med 5:e225. 2008..We undertook a systematic review of surveys of such disorders in homeless people...
- Analysis of carbohydrates and glycoconjugates by matrix-assisted laser desorption/ionization mass spectrometry: An update for 2003-2004David J Harvey
Department of Biochemistry, Oxford Glycobiology Institute, University of Oxford, Oxford OX1 3QU, UK
Mass Spectrom Rev 28:273-361. 2009....
- Mathematical models of plant-soil interactionTiina Roose
OCIAM and CMB, Mathematical Institute, University of Oxford, 24 29 St Giles, Oxford OX1 3LB, UK
Philos Trans A Math Phys Eng Sci 366:4597-611. 2008..Finally, we discuss different future avenues of research and how we believe these should be approached so that in the long term it will be possible to develop a valid, quantitative whole-plant model...
- Photophysics and deactivation pathways of thymineGunther Zechmann
Physical and Theoretical Chemistry Laboratory, Oxford University, South Parks Road, Oxford OX1 3QZ, UK
J Phys Chem A 112:8273-9. 2008..Two distinct types of paths were observed, both with features that should delay the internal conversion to the ground state. This is shown to provide a possible explanation for the relatively long excited-state lifetime of thymine...
- Biochemistry. A natural choice for activating hydrogenFraser A Armstrong
Inorganic Chemistry Laboratory, Department of Chemistry, University of Oxford, Oxford OX1 3QR, UK
Science 321:498-9. 2008
- Toll-like receptor 4 and CD14 polymorphisms in ankylosing spondylitis: evidence of a weak association in FinnsJennifer J Pointon
NIHR OxfordMusculoskeletal Biomedical Research Unit and BotnarResearch Centre, Oxford, UK
J Rheumatol 35:1609-12. 2008..To investigate the association of CD14 and Toll-like receptor (TLR4) with ankylosing spondylitis (AS)...
- Gallbladder disease and use of transdermal versus oral hormone replacement therapy in postmenopausal women: prospective cohort studyBette Liu
Epidemiology Unit, University of Oxford, Oxford OX3 7LF
BMJ 337:a386. 2008..To determine whether transdermal compared with oral use of hormone replacement therapy reduces the risk of gallbladder disease in postmenopausal women...
- A pilot randomised controlled trial of a brief cognitive behavioural group intervention to reduce recurrence rates in late life depressionPhilip Wilkinson
Department of Psychiatry, University of Oxford, Oxford, UK
Int J Geriatr Psychiatry 24:68-75. 2009..To apply the intervention in a research setting and to estimate its effect on recurrence rates in recently depressed older adults, in preparation for a definitive study...
- Autoimmunizing mechanisms in thymoma and thymusNick Willcox
Neuroscience Group, Weatherall Institute for Molecular Medicine, University of Oxford, England, UK
Ann N Y Acad Sci 1132:163-73. 2008..Together, moreover, our findings implicate both myoid cells and TEC in autoimmunization, and thus strongly support our hypothesis...
- In vitro assays for assessing the potential for copper complexes to function as radiopharmaceutical agentsP J Barnard
Siemens Oxford Molecular Imaging Laboratory, Inorganic Chemistry Laboratory, University of Oxford, Oxford, UK
Q J Nucl Med Mol Imaging 52:235-44. 2008..Evaluation of complex stability and speciation over a range of pH values may also be used to obtain information on potential biodistribution...
- Opa protein repertoires of disease-causing and carried meningococciMartin J Callaghan
Dept of Paediatrics, Centre for Clinical Vaccinology and Tropical Medicine, University of Oxford, Churchill Hospital, Headington, Oxford OX3 9DU, United Kingdom
J Clin Microbiol 46:3033-41. 2008..Meningococcal Opa repertoire is strongly linked to MLST genotype irrespective of epidemiological sampling and therefore correlates with invasiveness. It is not, however, strongly associated with severity of meningococcal disease...
- Patterns of coronary heart disease mortality over the 20th century in England and Wales: Possible plateaus in the rate of declineSteven Allender
Division of Public Health and Primary Health Care, University of Oxford, Oxford, UK
BMC Public Health 8:148. 2008..Recent work suggests that the rate of change in some groups has begun to decrease and may be starting to plateau or even reverse...
- Genetic association study for RSV bronchiolitis in infancy at the 5q31 cytokine clusterJ T Forton
The Wellcome Trust Centre for Human Genetics, University of Oxford, UK
Thorax 64:345-52. 2009..A recent twin study estimated a heritable contribution of 22% to RSV bronchiolitis. Genetic epidemiology provides a new approach to identifying important immune determinants of disease severity...
- Assessment of platelet function in the laboratoryP Harrison
Oxford Haemophilia and Thrombosis Centre, Churchill Hospital, Oxford, OX3 7LJ, UK
Hamostaseologie 29:25-31. 2009....
- Meta-analysis of neuroimaging data: a comparison of image-based and coordinate-based pooling of studiesGholamreza Salimi-Khorshidi
Centre for Functional MRI of the Brain FMRIB, University of Oxford, Oxford, UK
Neuroimage 45:810-23. 2009..To make IBMA analyses practical, however, the neuroimaging field needs to develop an effective mechanism for sharing image data, including whole-brain images of both effect estimates and their standard errors...
- Species differences in executive function correlate with hippocampus volume and neocortex ratio across nonhuman primatesSusanne Shultz
British Academy Centenary Research Project, Institute of Cognitive and Evolutionary Anthropology, University of Oxford, 64 Banbury Rd, Oxford OX2 6PN, England
J Comp Psychol 124:252-60. 2010..They also suggest that commonly used indices of encephalization, such as residuals of brain volume regressed on body size, may confound rather than clarify matters...
- Estimating the number of paediatric fevers associated with malaria infection presenting to Africa's public health sector in 2007Peter W Gething
Spatial Ecology and Epidemiology Group, Department of Zoology, University of Oxford, Oxford, United Kingdom
PLoS Med 7:e1000301. 2010..Here we compute the number of fevers likely to present to public health facilities in Africa and the estimated number of these fevers likely to be infected with Plasmodium falciparum malaria parasites...
- Systematic review of the prevalence of suicide in veterinary surgeonsB Platt
Centre for Suicide Research, Department of Psychiatry, University of Oxford, Oxford OX3 7JX, UK
Occup Med (Lond) 60:436-46. 2010..There is preliminary evidence to suggest that veterinary surgeons are a group at risk...
- Can we rely on the best trial? A comparison of individual trials and systematic reviewsPaul P Glasziou
Centre for Evidence Based Medicine, Department of Primary Health Care, University of Oxford, UK
BMC Med Res Methodol 10:23. 2010..However, for many clinical questions a systematic review will not be available, or may not be up to date. One option could be to use the evidence from an individual trial to answer the question?..
- An expedient route to substituted furans via olefin cross-metathesisTimothy J Donohoe
Department of Chemistry, University of Oxford, Oxford, OX1 3TA UK
Proc Natl Acad Sci U S A 107:3373-6. 2010..These cascade processes portend further opportunities for the regiocontrolled preparation of other highly substituted aromatic and heteroaromatic classes...
- Genetic influences in the aetiology of femoroacetabular impingement: a sibling studyT C B Pollard
Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences University of Oxford, Headington, Oxford OX3 7LD, UK
J Bone Joint Surg Br 92:209-16. 2010..This risk appears to be manifested through not only abnormal joint morphology, but also through other factors which may modulate progression of the disease...
- Drive against hotspot motifs in primates implicates the PRDM9 gene in meiotic recombinationSimon Myers
Department of Statistics, Oxford University, 1 South Parks Road, Oxford OX1 3TG, UK
Science 327:876-9. 2010..The involvement of PRDM9, which causes histone H3 lysine 4 trimethylation, implies that there is a common mechanism for recombination hotspots in eukaryotes but raises questions about what forces have driven such rapid change...
- The genetics of mood disordersJennifer Y F Lau
Department of Experimental Psychology, University of Oxford, 0X1 4AU, United Kingdom
Annu Rev Clin Psychol 6:313-37. 2010....
- Cohesin: its roles and mechanismsKim Nasmyth
Department of Biochemistry, University of Oxford, Oxford OX1 3QU, United Kingdom
Annu Rev Genet 43:525-58. 2009..Recent evidence suggests that cohesin acts as a novel topological device that traps chromosomal DNA within a large tripartite ring formed by its core subunits...
- Detection of MCI in the clinic: evaluation of the sensitivity and specificity of a computerised test battery, the Hopkins Verbal Learning Test and the MMSECeleste A de Jager
Oxford Project to Investigate Memory and Ageing OPTIMA, Department of Physiology, Anatomy and Genetics, University of Oxford, UK
Age Ageing 38:455-60. 2009..We evaluated whether the computerised cognitive test battery, CogState, was as sensitive to MCI as two well-validated 'paper-and-pencil' tests, the Hopkins Verbal Learning Test (HVLT) and the Mini-Mental Status Examination (MMSE)...
- Megaphylogeny, cell body plans, adaptive zones: causes and timing of eukaryote basal radiationsThomas Cavalier-Smith
Department of Zoology, University of Oxford, South Parks Road, Oxford OX1 3PS, United Kingdom
J Eukaryot Microbiol 56:26-33. 2009..New subphyla are established for Choanozoa and Loukozoa; Amoebozoa are divided into three revised subphyla, with Variosea transferred into Conosa...
- Cytochrome c oxidase levels in chondrocytes during monolayer expansion and after return to three dimensional cultureO A Boubriak
Department of Physiology, Anatomy and Genetics, University of Oxford, South Parks Road, Oxford OX1 3QX, UK
Osteoarthritis Cartilage 17:1084-92. 2009....
- The importance of radiation chemistry to radiation and free radical biology (The 2008 Silvanus Thompson Memorial Lecture)P Wardman
University of Oxford, Gray Cancer Institute, Mount Vernon Hospital, Northwood, Middlesex, UK
Br J Radiol 82:89-104. 2009....
- Light affects mitochondria to cause apoptosis to cultured cells: possible relevance to ganglion cell death in certain optic neuropathiesNeville N Osborne
Nuffield Laboratory of Ophthalmology, University of Oxford, Oxford, UK
J Neurochem 105:2013-28. 2008....
- SurprisesL Weiskrantz
Department of Experimental Psychology, University of Oxford, South Parks Road, Oxford OX1 3UD, United Kingdom
Neuropsychologia 46:771-3. 2008
- A computational analysis of the impact of the transient genetic imbalance on compartmentalized gene expression during sporulation in Bacillus subtilisDagmar Iber
Mathematical Institute, Centre for Mathematical Biology, University of Oxford, Oxford, UK
J Mol Biol 360:15-20. 2006..We conclude that the volume difference between the two compartments is the main determinant of cell fate...
- Controlled delivery of membrane proteins to artificial lipid bilayers by nystatin-ergosterol modulated vesicle fusionM R R de Planque
University of Oxford, Bionanotechnology IRC, Clarendon Laboratory, Department of Physics, Oxford, UK
IEE Proc Nanobiotechnol 153:21-30. 2006....
- Dynamic nucleosomes and gene transcriptionJane Mellor
Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, UK
Trends Genet 22:320-9. 2006..Here, new concepts such as dynamic nucleosomes and a dynamic histone code in gene transcription are explored...
- Nanohazards: knowledge is our first defenceAmanda S Barnard
Department of Materials, University of Oxford, Parks Road, Oxford, OX1 3PH, UK
Nat Mater 5:245-8. 2006
- Age-dependent diet choice in an avian top predatorChristian Rutz
Department of Zoology, University of Oxford, South Parks Road, Oxford OX1 3PS, UK
Proc Biol Sci 273:579-86. 2006..Furthermore, our study is, to our knowledge, the first demonstration that prey choice of breeders, which might reflect individual hunting skills, is age-dependent in a raptor...
- Suicide trends in discharged patients with mood disorders: associations with selective serotonin uptake inhibitors and comorbid substance misuseSeena Fazel
Department of Psychiatry, University of Oxford, Warneford Hospital, UK
Int Clin Psychopharmacol 21:111-5. 2006..We conclude that there is no evidence from this study of an increase in suicide rates following the introduction of SSRIs in the general population or in a high-risk inpatient sample...
- A theoretical analysis of the selection of differentially expressed genesSach Mukherjee
Department of Engineering Science, University of Oxford, Oxford OX1 3PJ, United Kingdom
J Bioinform Comput Biol 3:627-43. 2005..The utility of our approach is illustrated by comparing three widely-used gene selection methods...
- The dynamics of chromatin remodeling at promotersJane Mellor
Division of Molecular Genetics, Department of Biochemistry, University of Oxford, UK
Mol Cell 19:147-57. 2005..Recent advances have allowed nucleosome dynamics on promoters to be studied in real time, dramatically changing how we think about gene regulation on chromatin templates...
- Structural studies of glucose-6-phosphate and NADP+ binding to human glucose-6-phosphate dehydrogenaseMasayo Kotaka
Laboratory of Molecular Biophysics, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, England
Acta Crystallogr D Biol Crystallogr 61:495-504. 2005..The implications of possible interaction between the structural NADP(+) and G6P are considered...
- Parametric modelling of cost data: some simulation evidenceAndrew Briggs
Department of Public Health, Health Economics Research Center, University of Oxford, UK
Health Econ 14:421-8. 2005..In practical situations, where the true distribution is unknown, the sample mean generally remains the estimator of choice, especially when limited sample size prohibits detailed modelling of the cost data distribution...
- Barking up the wrong tree? Lexical ambiguity resolution in children with language impairments and autistic spectrum disordersCourtenay Frazier Norbury
Department of Experimental Psychology, University of Oxford, Oxford OX1 3UD, UK
J Exp Child Psychol 90:142-71. 2005..These findings challenge the assumptions of weak central coherence theory and demonstrate the need for stringent language controls in the study of autistic cognition...
- yBlast, a graphical front end for the standalone BLAST suiteNicolas Buisine
Biochemistry Department, Oxford University, Oxford, UK
Biotechniques 37:987-9. 2004
- Pathogen recognition or homeostasis? APC receptor functions in innate immunitySiamon Gordon
Sir William Dunn School of Pathology, South Parks Road, Oxford OXI 3RE, UK
C R Biol 327:603-7. 2004..This article will evaluate one of the paradigms that underlie innate immunity...
- Late sodium current in the pathophysiology of cardiovascular disease: consequences of sodium-calcium overloadD Noble
University Laboratory of Physiology, Parks Road, Oxford OX1 3PT, UK
Heart 92:iv1-iv5. 2006..Reduction of late sodium current would therefore be expected to have therapeutic benefits, particularly in disease states such as ischaemia in which sodium-calcium overload is a major feature...
- The beta-adrenergic receptor antagonist metipranolol blunts zinc-induced photoreceptor and RPE apoptosisNeville N Osborne
Nuffield Laboratory of Ophthalmology, University of Oxford, Oxford, United Kingdom
Invest Ophthalmol Vis Sci 47:3178-86. 2006..Furthermore, the effects of metipranolol, known to prevent retinal damage, and of other antiglaucoma drugs were determined on zinc-injured retinal cells...
- Functional analysis of six Kir6.2 (KCNJ11) mutations causing neonatal diabetesChristophe A J Girard
University Laboratory of Physiology, Oxford University, Oxford, OX1 3PT, UK
Pflugers Arch 453:323-32. 2006..None of the mutations substantially affected the sensitivity of the channel to inhibition by the sulphonylurea tolbutamide, suggesting patients carrying these mutations may respond to these drugs...
- Facts, fantasies and fun in epithelial physiologyC A R Boyd
Department of Physiology, Anatomy and Genetics, University of Oxford, Le Gros Clark Building, South Parks Road, Oxford, UK
Exp Physiol 93:303-14. 2008..One example is the finding that certain amino-acid transporters may act as 'transceptors' and play a role as sensors of the extracellular environment that then regulate intracellular pathways controlling cell growth...
- Cerebral blood flow and ventilatory sensitivity to CO2 measured with the modified rebreathing methodJaideep J Pandit
University of Oxford, Nuffield Department of Anaesthetics, John Radcliffe Hospital, UK
Adv Exp Med Biol 605:480-5. 2008....
- Psychopathology in adolescent and young adult criminal offenders (15-21 years) in SwedenMina Fazel
University Department of Psychiatry, Warneford Hospital, Oxford OX3 7JX, UK
Soc Psychiatry Psychiatr Epidemiol 43:319-24. 2008....
- Structural and functional abnormalities of the motor system in developmental stutteringKate E Watkins
Department of Experimental Psychology, University of Oxford, Oxford, UK
Brain 131:50-9. 2008....
- Differential effects of erythropoietin on neural and cognitive measures of executive function 3 and 7 days post-administrationKamilla Miskowiak
Department of Experimental Psychology, University of Oxford, South Parks Road, Oxford, OX1 3UD, UK
Exp Brain Res 184:313-21. 2008..The present study supports the notion that Epo may have clinical applications in the treatment of psychiatric disorder characterized by cognitive dysfunction...
- Multiple cascade effects of oxidative stress on astrogliaCherie E Bond
Department of Pharmacology, University of Oxford, Oxford OX1 3QT, United Kingdom
Glia 55:1348-61. 2007....
- Views of doctors in training on the importance and availability of career advice in UK medicineTrevor W Lambert
Unit of Health Care Epidemiology, Department of Public Health, University of Oxford, Oxford, UK
Med Educ 41:460-6. 2007....
- IkappaB genetic polymorphisms and invasive pneumococcal diseaseStephen J Chapman
The Wellcome Trust Centre for Human Genetics, University of Oxford, and Oxford Centre for Respiratory Medicine, Churchill Hospital Site, Oxford Radcliffe Hospital, Roosevelt Drive, Oxford, OX3 7BN, UK
Am J Respir Crit Care Med 176:181-7. 2007..Rare NFKBIA mutations cause immunodeficiency with severe bacterial infection, raising the possibility that common IkappaB gene polymorphisms confer susceptibility to common bacterial disease...
- Investigational treatment for vascular cognitive impairmentJacqueline Birks
University of Oxford, Cochrane Dementia and Cognitive Improvement Group, Nuffield Department of Clinical Medicine, John Radcliffe Hospital, Oxford OX3 9DU, UK
Expert Opin Investig Drugs 16:647-58. 2007..For the purposes of this review, the authors focus on interventions that have been evaluated by randomised controlled trials...
- Centriole/basal body morphogenesis and migration during ciliogenesis in animal cellsHelen R Dawe
Sir William Dunn School of Pathology, University of Oxford, South Parks Road, Oxford, OX1 3RE, UK
J Cell Sci 120:7-15. 2007....
- Immunoregulation in normal pregnancy and pre-eclampsia: an overviewIan L Sargent
Nuffield Department of Obstetrics and Gynaecology, University of Oxford, John Radcliffe Hospital, Oxford, OX3 9DU, UK
Reprod Biomed Online 13:680-6. 2006..There is evidence that such trophoblast debris interacts with maternal leukocytes and endothelial cells to stimulate the release of proinflammatory cytokines, which could then trigger the maternal disease...
- Strategies for managing antidepressant-induced sexual dysfunction: a reviewMatthew J Taylor
University Department of Psychiatry, Warneford Hospital, Oxford OX3 7JX, United Kingdom
Curr Psychiatry Rep 8:431-6. 2006..Many specific antidotes have been trialed but with lack of convincing benefit in most cases. However, where antidepressants cause erectile dysfunction, the use of sildenafil has the largest and most consistent evidence base...
- Total synthesis of (+)-cis-sylvaticin: double oxidative cyclization reactions catalyzed by osmiumTimothy J Donohoe
Department of Chemistry, University of Oxford, Chemistry Research Laboratory, UK
J Am Chem Soc 128:13704-5. 2006..The natural product was then prepared by a short sequence of reactions that is exceptionally concise: the final route being just 13 linear steps and 19 chemical operations in total...
- Meta-analysis of genetic association studiesMarcus R Munafo
Cancer Research UK GPRG, Department of Clinical Pharmacology, Radcliffe Infirmary, University of Oxford, Oxford OX2 6HE, UK
Trends Genet 20:439-44. 2004..If heterogeneity is adequately recognized and taken into account, meta-analysis can confirm the involvement of a genetic variant, but it is not a substitute for an adequately powered primary study...
- Gender, Relationship Dynamics, and HIV RiskDon Operario; Fiscal Year: 2007..Findings will contribute toward developing a theory-driven, culturally appropriate relationship-focused HIV prevention intervention with these groups. ..
- The international 1q type 2 diabetes consortiumMARK IAN MCCARTHY; Fiscal Year: 2010..This information will contribute to future diagnostic and therapeutic advances in the clinical management of this condition. ..
- The international 1q type 2 diabetes consortiumMark McCarthy; Fiscal Year: 2007..This information will contribute to future diagnostic and therapeutic advances in the clinical management of this condition. ..
- INNATE IMMUNITYSiamon Gordon; Fiscal Year: 2005..The meeting will conclude with examples of how disorders of innate immunity can give rise to important diseases. ..
- Monitoring tobacco mortality in 2M adults in 4 countriesRichard Peto; Fiscal Year: 2004..We already have evidence that this has taken place in China, where the earliest study was established. ..
- Starburst Viruses: A paradigm for modification of biological surfacesLeonard Seymour; Fiscal Year: 2007..g. hepatitis) and inherited diseases (e.g. cystic fibrosis) and notably in development of antibody-resistant viral vaccines suitable for repeated use in diseases such as HIV, malaria, TB and influenza. ..
- Neural Ensemble Codes in Drosophila OlfactionGERO MIESENBOECK; Fiscal Year: 2003..abstract_text> ..
- Neural Ensemble Codes in Drosophila OlfactionGERO MIESENBOECK; Fiscal Year: 2007..abstract_text> ..
- Genetically Encoded Phototriggers of Neuronal ActivityGERO MIESENBOECK; Fiscal Year: 2006..abstract_text> ..
- Neural Ensemble Codes in Drosophila OlfactionGERO MIESENBOECK; Fiscal Year: 2006..abstract_text> ..