A prioritization analysis of disease association by data-mining of functional annotation of human genes.

Complex diseases result from contributions of multiple genes that act in concert through pathways. Here we present a method to prioritize novel candidates of disease-susceptibility genes depending on the biological similarities to the known disease-related genes. The extent of disease-susceptibility of a gene is prioritized by analyzing seven features of human genes captured in H-InvDB. Taking rheumatoid arthritis (RA) and prostate cancer (PC) as two examples, we evaluated the efficiency of our method. Highly scored genes obtained included TNFSF12 and OSM as candidate disease genes for RA and PC, respectively. Subsequent characterization of these genes based upon an extensive literature survey reinforced the validity of these highly scored genes as possible disease-susceptibility genes. Our approach, Prioritization ANalysis of Disease Association (PANDA), is an efficient and cost-effective method to narrow down a large set of genes into smaller subsets that are most likely to be involved in the disease pathogenesis.

A review of tooth colour and whiteness.

OBJECTIVES: To review current knowledge on the definition of tooth whiteness and its application within dentistry, together with the measured range of tooth colours. METHODS: 'Medline' and 'ISI Web of Sciences' databases were searched electronically with key words tooth, teeth, colour, colour, white and whiteness. CONCLUSIONS: The application of colour science within dentistry has permitted the measurement of tooth colour in an objective way, with the most common colour space in current use being the CIELAB (Commission Internationale de l'Eclairage). Indeed, many investigators from a range of different countries have reported L*, a* and b* values for teeth measured in vivo using instrumental techniques such as spectrophotometers, colorimeters and image analysis of digital images. In general, these studies show a large range in L*, a* and b* values, but consistently show that there is a significant contribution of b* value or yellowness in natural tooth colour. Further developments in colour science have lead to the description of tooth whiteness and changes in tooth whiteness based on whiteness indices, with the most relevant and applicable being the WIO whiteness index, a modified version of the CIE whiteness index.

The in vitro and in vivo validation of a mobile non-contact camera-based digital imaging system for tooth colour measurement.

OBJECTIVE: To assess the reproducibility of a mobile non-contact camera-based digital imaging system (DIS) for measuring tooth colour under in vitro and in vivo conditions. METHODS: One in vitro and two in vivo studies were performed using a mobile non-contact camera-based digital imaging system. In vitro study: two operators used the DIS to image 10 dry tooth specimens in a randomised order on three occasions. In vivo study 1:25 subjects with two natural, normally aligned, upper central incisors had their teeth imaged using the DIS on four consecutive days by one operator to measure day-to-day variability. On one of the four test days, duplicate images were collected by three different operators to measure inter- and intra-operator variability. In vivo study 2:11 subjects with two natural, normally aligned, upper central incisors had their teeth imaged using the DIS twice daily over three days within the same week to assess day-to-day variability. Three operators collected images from subjects in a randomised order to measure inter- and intra-operator variability. RESULTS: Subject-to-subject variability was the largest source of variation within the data. Pairwise correlations and concordance coefficients were > 0.7 for each operator, demonstrating good precision and excellent operator agreement in each of the studies. Intraclass correlation coefficients (ICCs) for each operator indicate that day-to-day reliability was good to excellent, where all ICC's where > 0.75 for each operator. CONCLUSION: The mobile non-contact camera-based digital imaging system was shown to be a reproducible means of measuring tooth colour in both in vitro and in vivo experiments.

New Alström syndrome phenotypes based on the evaluation of 182 cases.

BACKGROUND: Alström syndrome is a recessively inherited genetic disorder characterized by congenital retinal dystrophy that leads to blindness, hearing impairment, childhood obesity, insulin resistance, and type 2 diabetes mellitus. We provide new details on cardiologic, hepatic, gastrointestinal, urologic, pulmonary, and neurobehavioral phenotypes in Alström syndrome and describe the histopathologic findings in 5 individuals. METHODS: We obtained data on 182 patients from clinical examinations, medical record reviews, standardized questionnaires, and personal interviews with physicians and parents. RESULTS: Dilated cardiomyopathy occurred in 60% of patients. Age at onset was either during infancy, often before vision disturbances were noted, or in adolescence or adulthood. There is a risk of recurrence of infantile cardiomyopathy. Hyperinsulinemia (92%) developed in early childhood and progressed to type 2 diabetes mellitus in 82% of those older than 16 years. Hypertriglyceridemia (54%) precipitated pancreatitis in 8 patients. Urologic dysfunction and gastrointestinal disturbances occurred in 48% and 35% of patients, respectively. Fifty-three percent of patients had persistent pulmonary symptoms. Neurologic symptoms in 20% of patients included clonic tic and absence seizures. Developmental motor or language delays were observed in 46% of patients. Fibrotic infiltrations of multiple organs, that is, kidney, heart, liver, lung, urinary bladder, gonads, and pancreas, were observed. CONCLUSIONS: The wide-ranging and complex spectrum of phenotypes reported herein broadens those previously described for Alström syndrome. These findings will aid physicians in making an early and accurate diagnosis and will help effect appropriate monitoring and treatment.

Interfacial nano-structuring of designed peptides regulated by solution pH.

The in-situ conformations of peptide layers formed from the adsorption of two different synthetic 15-mer peptides at the hydrophilic silicon oxide/aqueous solution interface have been determined using neutron reflectivity (NR). The first peptide is based on the native sequence of a protein-binding domain within a heteromeric transcriptional activator, HAP2, identified from yeast Saccharomyces cerevisiae, with tyrosine (Y) present at the 1st, 8th and 15th amino acid positions, hence we denote this YYY15. Substitution of tryptophan (W) at the same locations gives WWW15. Both peptides have alpha-helical structure in phosphate buffer, as determined by circular dichroism (CD) spectra. D(2)O was used as solvent in the NR experiments to highlight structural heterogeneity across the hydrogenated peptide layers. At pH 7, YYY15 was found to form a weakly adsorbed interfacial monolayer. However, the mutant WWW15 showed strong interfacial adsorption, with the interfacial layer characterized by a middle hydrophobic sublayer of 7-8 A with lower scattering length density and two almost symmetrical hydrophilic outer sublayers of 6-8 A with higher scattering length density, suggesting the formation of a "sideways-on" helical conformation. An increase in pH to 9 resulted in the improved packing within the interfacial layer with similar structure. However, decrease in pH to 5 reduced the interfacial adsorption, mainly due to the enhanced solubility of the peptides associated with the protonation of arginine (R) and lysine (K) groups and the decreasing concentration of divalent HPO(4)(2-) in the phosphate buffer. Subsequent assessment of the reversibility of adsorption showed that once the peptide layers were formed they did not desorb. These interfacial structures may provide feasible routes to interfacial nano-templating.

3D bulk measurements of the force distribution in a compressed emulsion system.

In particulate materials, such as emulsions and granular media, a "jammed" system results if particles are packed together so that all particles are touching their neighbours, provided the density is sufficiently high. This paper studies through experiment, theory and simulation, the forces that particles exert upon one another in such a jammed state. Confocal microscopy of a compressed polydisperse emulsion provides a direct 3D measurement of the dispersed phase morphology within the bulk of the sample. This allows the determination of the probability distribution of interdroplet forces, P(f) where f is the magnitude of the force, from local droplet deformations. In parallel, the simplest form of the Boltzmann equation for the probability of force distributions predicts P(f) to be of the form e(-f/p), where p is proportional to the mean force f for large forces. This result is in good agreement with experimental and simulated data.

Dynamic light scattering from colloidal fractal monolayers.

We address experimentally the problem of how the structure of a surface monolayer determines the viscoelasticity of the interface. Optical microscopy and surface quasielastic light scattering have been used to characterize aggregation of CaCO3 particles at the air-water interface. The structures formed by cluster-cluster aggregation are two-dimensional fractals that grow to eventually form a percolating network. This process is measured through image analysis. On the same system we measure the dynamics of interfacial thermal fluctuations (surface ripplons), and we discuss how the relaxation process is affected by the growing clusters. We show that the structures start damping the ripplons strongly when the two length scales are comparable. No macroscopic surface pressure is measured and this is in contrast to lipid, surfactant, or polymer monolayers at concentrations corresponding to surface coverage. This observation and the difficulty in fitting the ripplon spectrum with traditional models suggest that a different physical mechanism might be responsible for the observed damping of ripplons in this system.