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Biomedical subjects

Michael Thompson

Publications and source records attributed to Michael Thompson.

49 records · Page 3Linked to original sources
PubMed2002

Signaling of transcriptional chemistry in the on-line detection format.

A critical analysis of optical and acoustic wave instrumentation for examining the transcription apparatus and its regulation is given in the present review. The physico-chemical parameters derived from such in vitro experiments are important from a biophysical standpoint. The overall mechanism of transcription is composed of several mechanisms such as DNA-binding and promoter selection, closed and open polymerase complex formation, initiation of RNA synthesis, elongation and termination. Surface plasmon resonance (SPR) and fluorescence spectroscopy are widely employed techniques for investigating these mechanisms in real time. Although the binding of nucleotides, transcription factors (TFs) and inhibitors to RNA polymerase (RNAP) and the DNA template have been studied extensively, the synthesis of mRNA has not been investigated in detail except by methods based on electrophoresis. The use of acoustic wave physics for investigating transcriptional chemistry offers not only a time-course analysis but also the potential to gain insight into structural changes that occur during the process.

Acoustics↗
PubMed2002

Quality control of sampling: proof of concept.

Quality control in sampling has been demonstrated as practicable in sampling procedures that require the combination of sample increments to form a composite sample. The proposed method requires no sampling resources or use of time beyond those normally used. Increments are allocated at random into two half-sized composites, each of which is analysed separately. The absolute difference between the two results is plotted on a one-sided control chart, which is interpreted like a Shewhart chart. In commonly prevailing circumstances the analytical precision is negligible and the chart represents sampling precision alone.

Journal Article↗
PubMed2002

A sampling and analytical methodology for dental trace element analysis.

The role of trace elements in human health and environmental pollution has developed into an extensive field of research. This study describes a sampling and analytical strategy to determine the trace element content of primary (deciduous) teeth and to assess their use in environmental health and nutrition studies. Exfoliated and extracted primary teeth were collected from 21 Ugandan and 27 UK children. The crown and root of the teeth were separated and the former digested and analysed for several elements by inductively coupled plasma mass spectrometry. The influence of country, tooth type, age and gender were statistically investigated in addition to within-person variation. A principal components analysis (PCA) was used to treat the data in a multivariate fashion and facilitated the moderation of outliers. The results demonstrated that country of origin has an important influence on the elemental composition of teeth and that tooth type should be controlled in these types of studies. Given such a restriction, the age and gender of the donor should have no effect and do not need to be controlled. In addition, where country of domicile, age and gender were controlled, the concentrations of most elements within a single tooth type were representative of an individual and therefore may be indicative of health status.

Child↗
PubMed2002

A decision theory approach to fitness for purpose in analytical measurement.

The choice of an analytical procedure and the determination of an appropriate sampling strategy are here treated as a decision theory problem in which sampling and analytical costs are balanced against possible end-user losses due to measurement error. Measurement error is taken here to include both sampling and analytical variances, but systematic errors are not considered. The theory is developed in detail for the case exemplified by a simple accept or reject decision following an analytical measurement on a batch of material, and useful approximate formulae are given for this case. Two worked examples are given, one involving a batch production process and the other a land reclamation site.

Chemistry Techniques, Analytical↗
PubMed2002

Collaborative trials of the sampling of two foodstuffs, wheat and green coffee.

Two foodstuffs, wheat and green coffee, have been sampled from bulk lots by multiple samplers in the sampling analogue of a collaborative trial. For wheat the variation between samplers, contributing to the standard deviation of sampling reproducibility, was significant for two analytes. No significant sampling reproducibility variation was found in the coffee results, although significant sampling repeatability variation was detected.

Coffee↗
PubMed2002

Bump-hunting for the proficiency tester--searching for multimodality.

Kernel density estimation is a method for producing a smooth density approximation to a dataset and avoiding some of the problems associated with histograms. If it is used with a degree of smoothing determined by a fitness for purpose criterion, it can be applied to proficiency test data in order to test for multimodality in the z-scores. The bootstrap is an essential additional technique to determine how rugged the initially estimated kernel density is: the random resampling of the data in the bootstrap simulates a complete blind repeat of the proficiency test. In addition, useful estimates of the standard error of a mode can be thus obtained. It is suggested that a mode and its standard error can be used as an assigned value and its standard uncertainty.

Journal Article↗
PubMed2002

A comparison of the Kjeldahl and Dumas methods for the determination of protein in foods, using data from a proficiency testing scheme.

Both the Kjeldahl and the Dumas methods for the determination of protein in foodstuffs are currently in use, but the empirical nitrogen factors used to convert the determined nitrogen content to protein content are based on the Kjeldahl method alone. Non-equivalence between the two methods could therefore result in some laboratories reporting an incorrect protein content. We report here a study using data accumulated over several years in the results of a proficiency testing scheme. On average the Dumas method provided results that were relatively higher by about 1.4% than the Kjeldahl method, but the difference between the methods depended on the type of foodstuff. The methodology of looking for bias between analytical methods is critically discussed.

Food Analysis↗
PubMed2002

Precision estimates produced by specially-designed ruggedness tests compared with those derived from collaborative trials, in relation to estimation of measurement uncertainty.

We have compared the reproducibility precisions provided by collaborative trials with precisions obtained from ruggedness tests specially designed to try to simulate between-laboratory variation. We found that the ruggedness tests underestimated the reproducibility variability consistently for those analytical methods requiring empirical calibration. The ruggedness tests provided on average a precision merely comparable with repeatability precision. This finding has implications for the estimation of uncertainty.

Food Analysis↗
PubMed2002

Acoustic coupling of transverse waves as a mechanism for the label-free detection of protein-small molecule interactions.

An on-line acoustic transverse wave device has been used to study the binding interactions of human serum albumin with the small molecule drug, warfarin. Four linking systems for the covalent attachment of the protein to the surface of the gold electrode of the sensor were employed, namely thioctic acid, cysteamine, an N-hydroxysuccinimide ester and 11-mercaptoundecanoic acid. All the attachment protocols involve the ability of thiols to form gold-sulfur bonds at the metal surface. The functional group present at the distal end of each thiol was chemically activated in order to facilitate covalent attachment of the protein. On-line sensor measurements of acoustic parameters show that the binding of warfarin to the protein can be detected, and depending on the linking monolayer used three of four possible combinations of changes in series resonance frequency and motional resistance are observed. Calculations of possible mass and thickness viscoelastic effects demonstrate that these conventional notions are invalid in terms of an explanation of the acoustic signals observed for the warfarin-protein interaction. The responses are ascribed to acoustic coupling phenomena.

Electrochemistry↗
PubMed2002

HLA and cytokine gene polymorphisms in relation to occurrence of palindromic rheumatism and its progression to rheumatoid arthritis.

OBJECTIVE: Palindromic rheumatism (PR) is an episodic arthropathy that may precede typical rheumatoid arthritis (RA), although pathogenetic relationships between these disorders remain unclear. The predictive value for those immunogenetic risk factors implicated in RA for disease progression in PR remains to be established. A previous retrospective analysis from our group has implicated rheumatoid factor in disease progression. Our objective was to determine the contribution of HLA and cytokine gene polymorphisms implicated in RA to predisposition to PR and to progression of PR to chronic joint inflammation. METHODS: We studied 147 patients with PR seen in a tertiary referral center; 87 were selected retrospectively from the period 1986-96 using a structured selection process and 60 were selected prospectively in the period 1997-2001. Comparison groups included 149 patients with RA and 149 ethnically matched controls. Typing for HLA-DRB1 alleles and HLA-DRB1-04 subtypes was performed following polymerase chain reaction (PCR) amplification using sequence-specific primers (SSP). Cytokine genotypes were ascertained following PCR-SSP with and without digestion with restriction enzymes. Time-adjusted survival analysis (Kaplan-Meier) and multivariate logistic regression were used to assess the independent contribution of immunogenetic markers in assessing progression of PR to chronic joint inflammation. RESULTS: Thirty-one percent of patients progressed to connective tissue disease after a mean of 10.6 (retrospective group) and 3.9 (prospective group) years. A significantly increased prevalence of the shared epitope (SE) allele was noted in patients with PR (65%) versus controls (39%) (OR 2.9, 95% CI 1.8-4.6, p < 0.001). This primarily reflected increased prevalence of the DRB1-0401 and 0404 and not DRB1-01 alleles. A weak contribution to disease susceptibility was also noted with carriage of the IL4 promoter -590T (OR 1.8, 95% CI 1.1-3.0, p = 0.02) and IL4 intron 3 RP1 (OR 1.7, 95% CI 1.1-2.9, p = 0.03) alleles. The TNFa +489A allele was associated with RA (OR = 2.7, 95% CI 1.5-5.1, p = 0.001) in both SE+ and SE- patients, but not with PR. Time-adjusted and multivariate Cox regression analysis revealed that only homozygosity for SE alleles was a significant independent risk factor for disease progression to chronicity in PR (hazard ratio 2.9, 95% CI 1.2-6.9, p = 0.02). However, none of 8 patients homozygous for SE- DRB1 XP4n alleles developed chronic disease after 10 years of followup (p = 0.07). CONCLUSION: The immunogenetic risk profile for PR resembles that for RA, indicating that PR is likely not an independent entity. A significant gene dose effect for SE alleles is operative in determining risk for progression from PR to RA.

Adult↗
PubMedDate not supplied

Scoring in genetically modified organism proficiency tests based on log-transformed results.

The study considers data from 2 UK-based proficiency schemes and includes data from a total of 29 rounds and 43 test materials over a period of 3 years. The results from the 2 schemes are similar and reinforce each other. The amplification process used in quantitative polymerase chain reaction determinations predicts a mixture of normal, binomial, and lognormal distributions dominated by the latter 2. As predicted, the study results consistently follow a positively skewed distribution. Log-transformation prior to calculating z-scores is effective in establishing near-symmetric distributions that are sufficiently close to normal to justify interpretation on the basis of the normal distribution.

Data Interpretation, Statistical↗