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A new image representation algorithm inspired by image submodality models, redundancy reduction, and learning in biological vision.

We develop a new biologically motivated algorithm for representing natural images using successive projections into complementary subspaces. An image is first projected into an edge subspace spanned using an ICA basis adapted to natural images which captures the sharp features of an image like edges and curves. The residual image obtained after extraction of the sharp image features is approximated using a mixture of probabilistic principal component analyzers (MPPCA) model. The model is consistent with cellular, functional, information theoretic, and learning paradigms in visual pathway modeling. We demonstrate the efficiency of our model for representing different attributes of natural images like color and luminance. We compare the performance of our model in terms of quality of representation against commonly used basis, like the discrete cosine transform (DCT), independent component analysis (ICA), and principal components analysis (PCA), based on their entropies. Chrominance and luminance components of images are represented using codes having lower entropy than DCT, ICA, or PCA for similar visual quality. The model attains considerable simplification for learning from images by using a sparse independent code for representing edges and explicitly evaluating probabilities in the residual subspace.

Algorithms↗

The factor structure of the Maslach Burnout Inventory in two Swedish human service organizations.

The Maslach Burnout Inventory, MBI, is a well established measure of burnout. Its validity outside the USA is, however, uncertain. The aim of the present study was therefore to apply the MBI on personnel in two Swedish human service organizations, comparing factor solutions and scoring norms to the original results. The population consisted of 5730 employees in the Social Insurance Organization (SIO) and the Individual and Family Care section (IFC) of the social welfare agencies. Principal components analysis, principal axes and alpha factor analyses were performed, all with varimax rotation. The suggested three factor solution showed to be remarkably stable irrespective of type of analysis. Score levels were somewhat lower on two subscales in the Swedish population. The conclusion is that the psychometric properties of the MBI seem to be very satisfactory and stable, at least in comparison between Sweden and USA. It is suggested that the dimensionality of MBI is rather invariant, but that the score levels covary with national, cultural, or professional contexts within the human services.

Adult↗

Genome-wide association study in esophageal cancer using GeneChip mapping 10K array.

Whole genome association studies of complex human diseases represent a new paradigm in the postgenomic era. In this study, we report application of the Affymetrix, Inc. (Santa Clara, CA) high-density single nucleotide polymorphism (SNP) array containing 11,555 SNPs in a pilot case-control study of esophageal squamous cell carcinoma (ESCC) that included the analysis of germ line samples from 50 ESCC patients and 50 matched controls. The average genotyping call rate for the 100 samples analyzed was 96%. Using the generalized linear model (GLM) with adjustment for potential confounders and multiple comparisons, we identified 37 SNPs associated with disease, assuming a recessive mode of transmission; similarly, 48 SNPs were identified assuming a dominant mode and 53 SNPs in a continuous mode. When the 37 SNPs identified from the GLM recessive mode were used in a principal components analysis, the first principal component correctly predicted 46 of 50 cases and 47 of 50 controls. Among all the SNPs selected from GLMs for the three modes of transmission, 39 could be mapped to 1 of 33 genes. Many of these genes are involved in various cancers, including GASC1, shown previously to be amplified in ESCCs, and EPHB1 and PIK3C3. In conclusion, we have shown the feasibility of the Affymetrix 10K SNP array in genome-wide association studies of common cancers and identified new candidate loci to study in ESCC.

Carcinoma, Squamous Cell↗

Pulsatile versus steady component of blood pressure: a cross-sectional analysis and a prospective analysis on cardiovascular mortality.

Studies on the prognostic significance of blood pressure on cardiovascular disease have essentially investigated the levels of diastolic or systolic blood pressure. However, blood pressure may also be divided into two other components: steady (mean arterial pressure) and pulsatile (pulse arterial pressure). The relations of these two components with cardiovascular risk factors and cardiovascular mortality were investigated in 18,336 men and 9,351 women aged 40-69 years, who were followed up for a mean period of 9.5 years. However, the interpretation of the relations is complicated by the strong correlation existing between these two components. A principal component analysis was performed to obtain two independent parameters: a steady and a pulsatile component index, strongly correlated with mean and pulse arterial pressure, respectively. In the cross-sectional analysis, relations were stronger with the steady component index than with the pulsatile component index; an association was found between left ventricular hypertrophy and the pulsatile component index in both sexes. The survival analysis was not performed in women under 55 as only 11 cardiovascular deaths occurred in this group. The steady component index was a strong prognostic factor of all types of cardiovascular death in both sexes. In women, the pulsatile component index was positively correlated to death from coronary artery disease and inversely correlated to stroke. In conclusion, the steady component of blood pressure is a strong risk factor for cardiovascular death in both sexes; the pulsatile component could be a risk factor independent of the steady component in women older than 55 years.

Adult↗

Strenuous exercise-induced change in redox state of human serum albumin during intensive kendo training.

A high-performance liquid chromatographic (HPLC) analysis of human serum albumin (HSA) using an ion-exchange (DEAE-form) column shows three components: The principal component corresponds to human mercaptalbumin (HMA); the secondary to nonmercaptalbumin (HNA), having mixed disulfide with cystine (HNA[Cys]), or oxidized glutathione (HNA[Glut]); and the tertiary to HNA, oxidized more highly than mixed disulfide. The purpose of the present study is to clarify the effects of strenuous exercise load on HMA--><--HNA conversion (i.e., dynamic change in redox state) of HSA from elite kendo athletes (n=30; 20.0+/-1.1 years old). They participated in an intensive kendo training camp for 5 d. The mean value for the HMA fraction (f[HMA]) of kendo athletes after camp (62.8+/-2.4%) was significantly lower than before camp (71.9+/-3.7%) (p<0.0005). In contrast, the mean value for f(HNA-1) (i.e., f[HNA(Cys) and HNA(Glut)]) after camp (34.2+/-2.1%) was significantly higher than before camp (25.7+/-3.7%) (p<0.0005). These results suggested that strenuous physical exercise markedly increased the oxidized albumin level in extracellular fluids during the intensive training camp.

Adult↗

Validity of function tests on the upper extremities in establishing a prognosis in vibration syndrome.

The validity of function tests on the upper extremities as prognostic tools in vibration syndrome was evaluated over a sequence of observation periods. The subjects examined were 672 forest workers using chain saws who had had some complaints and who had shown abnormal findings in the function tests. The function tests consisted of peripheral circulatory and sensory tests, including cold provocation and motor tests of functional capacity in the upper extremities. From the results of testing, 23 variables were selected and examined by multivariate analysis. The four principal components were extracted by principal component analysis, and the factor score of the peripheral circulatory disturbances component was found to be highly correlated with the severity of VWF (Vibration-induced White Finger). The course of VWF and the nail compression test had high standard regression coefficients with the severity of vibration syndrome. The course of finger numbness, pinching power, pain threshold, skin temperature and X-ray findings in the elbow joints had high discriminant function values for the evaluation of the severity of vibration syndrome.

Discriminant Analysis↗

Potential for improving description of bovine udder health status by combined analysis of milk parameters.

The objective of this study was to assess the potential of a stepwise multivariate procedure to quantify cow-level udder health based on eight milk parameters: milk yield, protein percentage, fat percentage, lactose percentage, citrate percentage, somatic cell count (SCC), and two electrical conductivity parameters. The data were collected in one research herd and included 821 cow-level observations. In addition to milk parameters, disease recordings and bacteriology on quarter milk samples every eighth week throughout lactation were included. A multivariate mixed model was applied to the milk parameters in a healthy subset to adjust for the following systematic factors: total mixed ration (TMR) energy density, breed-line combination, parity, stage of lactation, and season. The proportion of variance accounted for by the mixed model ranged from 0.14 to 0.82 depending on milk parameter. The adjustments estimated in the healthy subset were applied to the whole dataset, including observations pertaining to nonhealthy cows. Combined description of the adjusted variation in the milk parameters was performed with a principal component analysis. The first principal component (Prin1) described 30% of the adjusted variation and was interpreted as being the main consequences of mastitis. Finally, cluster analysis based on Prin1 separated the observations into nine clusters, which were strongly associated with udder health in terms of increasing clinical and subclinical mastitis with increasing level of Prin1. It was concluded that a multivariate approach to assess udder health from milk parameters has the potential to substantially improve description of udder health.

Analysis of Variance↗

A regression model for carpal tunnel syndrome.

The purpose of this study was to determine whether a logistic regression model for the diagnosis of carpal tunnel syndrome (CTS) could be developed. Forty-eight variables were initially identified, for the 28 CTS and 34 non-CTS subjects, including 28 measures of nerve function, 6 anatomical measurements, 8 variables relating to disease symptoms, and 6 variables relating to physical attributes. An a priori clustering procedure was used to establish groups for the principal components analyses. The first principal component of each cluster was then used in a backward, stepwise logistic regression analysis. The best combination of candidate variables, as identified by the regression equation, was Raynaud's symptoms and median nerve motor function. The results of this study indicate that a model for CTS can be generated from a set of variables and that a linear combination of variables representing nerve function is closely associated with conduction decrements resulting from CTS.

Carpal Tunnel Syndrome↗

The factor structure of the dental fear survey applied to private general practice patients awaiting dental treatment.

OBJECTIVES: Factor analysis of the Dental Fear Survey (DFS), applied to patients awaiting dental treatment in an average private practice general dental clinic in comparison to other analyses. METHOD: A combination of secondary and primary data. The latter were obtained from 145 consecutive self-referred patients (89 women, 56 men, aged between 17 and 82 years) at a private dental clinic, responding to an anonymous questionnaire. In analyses, principal components and principal axes factor analysis were used with varimax and oblimin rotations. Cronbach's alpha was calculated. RESULTS: There were differences in factor loading patterns between materials. No generally valid pattern could be discerned. Congruence between materials was higher for communalities. Oblimin rotation resulted in highly correlated factors. Excluding items with lower loadings yielded a clear one-factor solution. Cronbach's alpha was very high (0.96) for a one-factor solution on the primary material. CONCLUSIONS: The DFS may well be used as a measure of dental fear, but the dimensionality of the measure is more doubtful according to the present result. The DFS could be reduced to a unidimensional measure. In the clinical situation, a short measure such as the Dental Anxiety Scale (DAS) could be used for screening, giving guidance about whether the patient is afraid. For those with higher scores on the DAS, the DFS could be used for purposes of greater discrimination.

Adolescent↗

Morphological and biometric revision of the cleithra, opercular and pharyngeal bones of Iberian teleosts belonging to the genus Barbus (Pisces, Cyprinidae).

Species of the genus Barbus present in the Iberian Peninsula are an interesting study group, due to its diversity and complex taxonomic position. In this work, 299 specimens of eight species were studied. All of them are endemic to the Iberian Peninsula, except for Barbus meridionalis. Cleithra, opercular and pharyngeal bones were extracted from each specimen. These bones were morphologically compared and measured, obtaining biometric indices. From these indices, the biometric differences of each bone were analysed with a principal component analysis. Later, a principal component analysis and a discriminant analysis were performed considering the three bones together. The morphological differences and similarities are congruous with the biometric results. In addition, this osteological comparison partially agrees with the present taxonomic position of these species, being a contribution to the systematics and phylogeny of genus.

Animals↗

Comparison of multiexcitation fluorescence and diffuse reflectance spectroscopy for the diagnosis of breast cancer (March 2003).

Nonmalignant (n = 36) and malignant (n = 20) tissue samples were obtained from breast cancer and breast reduction surgeries. These tissues were characterized using multiple excitation wavelength fluorescence spectroscopy and diffuse reflectance spectroscopy in the ultraviolet-visible wavelength range, immediately after excision. Spectra were then analyzed using principal component analysis (PCA) as a data reduction technique. PCA was performed on each fluorescence spectrum, as well as on the diffuse reflectance spectrum individually, to establish a set of principal components for each spectrum. A Wilcoxon rank-sum test was used to determine which principal components show statistically significant differences between malignant and nonmalignant tissues. Finally, a support vector machine (SVM) algorithm was utilized to classify the samples based on the diagnostically useful principal components. Cross-validation of this nonparametric algorithm was carried out to determine its classification accuracy in an unbiased manner. Multiexcitation fluorescence spectroscopy was successful in discriminating malignant and nonmalignant tissues, with a sensitivity and specificity of 70% and 92%, respectively. The sensitivity (30%) and specificity (78%) of diffuse reflectance spectroscopy alone was significantly lower. Combining fluorescence and diffuse reflectance spectra did not improve the classification accuracy of an algorithm based on fluorescence spectra alone. The fluorescence excitation-emission wavelengths identified as being diagnostic from the PCA-SVM algorithm suggest that the important fluorophores for breast cancer diagnosis are most likely tryptophan, NAD(P)H and flavoproteins.

Algorithms↗

Removal of analyte-irrelevant variations in near-infrared tissue spectra.

This paper describes mathematical techniques to correct for analyte-irrelevant optical variability in tissue spectra by combining multiple preprocessing techniques to address variability in spectral properties of tissue overlying and within the muscle. A mathematical preprocessing method called principal component analysis (PCA) loading correction is discussed for removal of inter-subject, analyte-irrelevant variations in muscle scattering from continuous-wave diffuse reflectance near-infrared (NIR) spectra. The correction is completed by orthogonalizing spectra to a set of loading vectors of the principal components obtained from principal component analysis of spectra with the same analyte value, across different subjects in the calibration set. Once the loading vectors are obtained, no knowledge of analyte values is required for future spectral correction. The method was tested on tissue-like, three-layer phantoms using partial least squares (PLS) regression to predict the absorber concentration in the phantom muscle layer from the NIR spectra. Two other mathematical methods, short-distance correction to remove spectral interference from skin and fat layers and standard normal variate scaling, were also applied and/or combined with the proposed method prior to the PLS analysis. Each of the preprocessing methods improved model prediction and/or reduced model complexity. The combination of the three preprocessing methods provided the most accurate prediction results. We also performed a preliminary validation on in vivo human tissue spectra.

Fats↗

Lung scintigraphy clustering by texture analysis.

The efficiency of texture analysis parameters, describing the organization of grey level variations of an image, was studied for lung scintigraphic data classification. Twenty one patients received a 99mTc-MAA perfusion scan and 81mKr and 127Xe ventilation scans. Scans were scaled to 64 grey levels and 100 k events for inter subject comparison. The texture index was the average of the absolute difference between a pixel and its neighbors. Energy, entropy, correlation, local homogeneity and inertia were computed using co-occurrence matrices. A principal component analysis was carried out on each parameter for each type of scan and the first principal components were selected as clustering indices. Validation was achieved by simulating 2 series of 20 increasingly heterogeneous perfusion and ventilation scans. For most of the texture parameters, one principal component could summarize the patients data since it corresponded to the relative variances of 67%-88% for perfusion scans, 53%-99% for 81mKr scans and 38%-97% for 127Xe scans. The simulated series demonstrated a linear relationship between the heterogeneity and the first principal component for texture index, energy, entropy and inertia. This was not the case for correlation and local homogeneity. We conclude that heterogeneity of lung scans may be quantified by texture analysis. The texture index is the easiest to compute and provides the most efficient results for clinical purpose.

Humans↗

Histopathology of endomyocardial biopsies from patients with idiopathic cardiomyopathy; quantitative evaluation based on multivariate statistical analysis.

In order to evaluate the histological changes in endomyocardial biopsies from 121 patients with idiopathic cardiomyopathy, quantitation of histological findings was performed and analysed by univariate and multivariate statistical analysis. Several findings, i.e. (1) disarray of myofibers, (2) hypertrophy of myofibers, (3) scarcity of myofibrils, (4) nuclear changes, (5) vacuolization, (6) proliferation of collagen fibers, (7) endocardial thickening, (8) interstitial edema, (9) cell infiltration, (10) fatty infiltration and (11) basophile degeneration, were graded in five degrees (- to 4+) or two degrees (- or +) depending upon the severity and the extent of each finding. The univariate analysis of the graded histological findings revealed no remarkable difference between the biopsies from HCM and CCM pts, except for nuclear changes, which appeared to be more prevalent in CCM (p less than 0.05). In the categorical principal component analysis of the first six histological findings listed above, three principal components could be extracted. The first principal component was characterized by all six histological findings, the second by vacuolization and proliferation of collagen fibers, and the third by hypertrophy of myofibers. The mean values of the first principal scores indicated that, in either LVB or RVB histological changes were more severe in CCM than in HCM, and in fatal cases than in survivors. The second principal scores indicated that fatal cases had more collagenosis but less severe vacuolization than survivors. The histological findings in RVB appeared to be significantly correlated (r = 0.41, p less than 0.05) with those in LVB obtained from the same heart, but some differences were noted, myofiber hypertrophy and vacuolization being more prominent in LVB than in RVB.

Adolescent↗

ECG data compression using Hebbian neural networks.

Principal component analysis has long been used for a variety of signal processing applications, including signal compression. Neural network implementations of principal component analysis provide a means for unsupervised feature discovery and dimension reduction. In this paper, we describe a method for the compression of ECG data using principal component analysis. Hebbian neural networks were used for principal components computation. A variety of examples of normal and pathological ECGs obtained from the MIT ECG database demonstrate that the proposed method can provide compression ratio up to 30 with PRD% less than 5%.

Algorithms↗

Functional data analysis for gait curves study in Parkinson's disease.

In Parkinson's disease, precise analysis of gait disorders remains essential for the diagnostic or the evaluation of treatments. During a gait analysis session, a series of successive dynamic gait trials are recorded and data involves a set of continuous curves for each patient. An important aspect of such data is the infinite dimension of the space data belong. Therefore, classical multivariate statistical analysis are inadequate. Recent methods known as functional data analysis allow to deal with this kind of data. In this paper, we present a functional data analysis approach for solving two problems encountered in clinical practice: (1) for a given patient, assessing the reliability of the gait curves corresponding to the different trials (2) performing intra individual curves comparisons for assessing the effect of a therapy. In a first step, each discretized curve was interpolated using cubic B-splines bases in order to ensure the continuous character of data. A cluster analysis was performed on the smoothed curves to assess the reliability and to identify a subset of representative curves for a given patient. Intra individual curves comparisons were carried out in the following way: (1) functional principal component analysis was performed to describe the temporal structure of data and to derive a finite number of reliable principal components. (2) These principal components were used in a linear discriminant analysis to point out the differences between the curves. This procedure was applied to compare the gait curves of 12 parkinsonian patients under 4 therapeutic conditions. This study allowed us to develop objective criteria for measuring the improvements in a subject's gait and comparing the effect of different treatments. The methods presented in this paper could be used in other medical domains when data consist in continuous curves.

France↗

[An epidemiological study of health behavior and health consciousness in smoking behavior modification].

Among health enhancement activities which have been promoted at various worksites smoking cessation is the most common but is seldom very successful. Smoking cessation programs have almost always neglected individual background factors. The main purpose of this study is to evaluate the factors critical to behavior modification with respect to smoking cessation at worksites. Five hundred and sixty-five chemical factory workers responded to questionnaires on their smoking behavior lifestyle, drinking habits, opinions on smoking, opinions on quitting smoking, knowledge about the effects of smoking on health, and type A behavior pattern. Two hundred thirty two male smokers (age 20-58) were chosen for the smoking cessation program, which was administered during the periodical health examinations. One year after receiving the anti-smoking education their smoking behaviors were again surveyed. Fifteen employees had quit smoking and 79 had reduced consumption by more than 10 cigarettes per day. A principal component analysis was performed in order to extract factors from the numerous items on the questionnaire. Principal component scores were compared between the group that had stopped smoking or had cut back by more than 10 cigarettes per day (Responsive Group) and the rest of the smokers (Unresponsive Group). Principal component scores, which appear to be related to levels of individual health consciousness and levels of regular exercise, were significantly higher in the responsive group than in the unresponsive group. No significant differences were noted between the two groups for principal component scores for knowledge of effects of smoking on health, drinking habits, opinions on smoking, opinions on quitting smoking, and type A behavior.(ABSTRACT TRUNCATED AT 250 WORDS)

Adult↗

Correlation of graph-theoretical parameters with biological activity.

Ośmialowski and Kaliszan calculated graph-theoretical indices for substituted isonicotinic hydrazides and used simple and multiple regression to search (unsuccessfully) for correlations with biological activity. The present paper describes successful searches for correlation in the same data set using principal component analysis (PCA) with multivariate outlier testing and also using stepwise multiple regression. Following PCA, correlation with biological activity always appeared in the second principal component, not the first, that is, after projection of the data points into the (n - 1)-space orthogonal to the first principal component axis. In that space, the principal component score was a more accurate predictor of biological activity than were equations provided by multiple regression or stepwise multiple regression using the underlying variables. A multivariate outlier test identified one observation as discordant, and removing that observation improved prediction further.

Data Interpretation, Statistical↗