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PubMed2006

GH secretory pattern in young adults who discontinued GH treatment for GH deficiency and decreased longitudinal growth in childhood.

OBJECTIVE: Some adolescents who discontinue GH treatment due to GH deficiency (GHD) and short stature in childhood do not have classical GHD at retesting in adult life. It is unknown whether there is a neuroendocrine disturbance in the spontaneous pattern of GH release in these patients. DESIGN/PATIENTS/METHODS: Thirty-seven adolescents, who had received treatment with GH due to impaired longitudinal growth, were included. The adolescents were divided into two groups; one (GHD; n = 19) with classical GHD in adult life and another (GH sufficient (GHS); n = 18) without classical adult GHD. One year after GH discontinuation, 24-h GH profiles were performed with blood sampling every 30 min. Sixteen matched healthy controls were also studied. All blood samples were analysed using an ultrasensitive GH assay and then, approximate entropy (ApEn) and deconvolution analysis were performed. RESULTS: The GHD group had higher mean ApEn level than the healthy controls (P < 0.05). As measured by deconvolution analysis, they had lower basal GH secretion (P < 0.01), increased number of GH peaks (P < 0.001), but lower burst mass (P < 0.001), lower percentage pulsatile GH secretion (P < 0.001) and lower total GH secretion (P < 0.001), compared with control subjects. Adolescents in the GHS group had a pattern of 24-h GH release similar to that in healthy controls. CONCLUSION: Young adults with childhood-onset severe GHD have a high-frequency, low-amplitude GH secretion with decreased orderliness. The adolescents without classical GHD in adult life maintain a pattern of spontaneous GH release that is not statistically different from that in the healthy controls.

Adolescent↗

PubMedDate not supplied

[Entropy in the assessment of diagnostic importance of changes in urine].

Entropy, as the measure of that part of the heat or energy of a system which is not available to perform work, is suitable for application in numerous medical investigations. It is determined in regard to two states of the system: states above and below the examined level of studied parameters. By application of entropy function in completed examinations sometimes it is possible to gain additional conclusions or to confirm already existing. This method of entropy determination was performed in final quantitative bacteriological and cytological examinations of samples gained from the first morning urine of 314 persons without symptoms or signs of urinary tract infection, 422 patients with symptoms and signs of bacterial infection and 31 deceased persons with autopsy confirmed pyelonephritis. Gathered results confirm the diagnostic and prognostic significance of quantitative bacteriological and cytological urine examination. However, by examination of these findings in patients with pyelonephritis, as well as the nature of bacteria, it can be concluded that the lowest of bacteriuria is between 10(3) and 10(4) in 1 ml of urine.

Entropy↗

PubMed1993

Application of nonlinear sampling schemes to COSY-type spectra.

Nonlinear sampling along the t1 dimension is applied to COSY-type spectra. The sine dependence of the time domain signals for the cross peaks is matched by a nonlinear sampling scheme that samples most densely around the maximum of the sine function. Data are processed by maximum entropy reconstruction, using a modified implementation of the 'Cambridge' algorithm of Skilling and Bryan. The procedure is demonstrated for P.E. COSY spectra recorded on a cyclic hexapeptide and on a 126-residue domain of the protein villin. The number of t1 values in the nonlinearly sampled experiments was reduced by a factor of four compared to linear sampling. The sensitivity and resolution of the resulting spectra are comparable to those achieved by conventional methods. The method described can thus significantly reduce the measuring time for COSY-type spectra.

Algorithms↗

PubMed2005

Spatially heterogeneous dynamics and the Adam-Gibbs relation in the Dzugutov liquid.

We perform molecular dynamics simulations of a one-component glass-forming liquid and use the inherent structure formalism to test the predictions of the Adam-Gibbs (AG) theory and to explore the possible connection between these predictions and spatially heterogeneous dynamics. We calculate the temperature dependence of the average potential energy of the equilibrium liquid and show that it obeys the Rosenfeld-Tarazona T(3/5) law for low temperature T, while the average inherent structure energy is found to be inversely proportional to temperature at low T, consistent with a Gaussian distribution of potential energy minima. We investigate the shape of the basins around the local minima in configuration space via the average basin vibrational frequency and show that the basins become slightly broader upon cooling. We evaluate the configurational entropy S(conf), a measure of the multiplicity of potential energy minima sampled by the system, and test the validity of the AG relation between S(conf) and the bulk dynamics. We quantify the dynamically heterogeneous motion by analyzing the motion of particles that are mobile on short and intermediate time scales relative to the characteristic bulk relaxation time. These mobile particles move in one-dimensional "strings", and these strings form clusters with a well-defined average cluster size. The AG approach predicts that the minimum size of cooperatively rearranging regions (CRR) of molecules is inversely proportional to S(conf), and recently (Phys. Rev. Lett. 2003, 90, 085506) it has been shown that the mobile-particle clusters are consistent with the CRR envisaged by Adam and Gibbs. We test the possibility that the mobile-particle strings, rather than clusters, may describe the CRR of the Adam-Gibbs approach. We find that the strings also follow a nearly inverse relation with S(conf). We further show that the logarithm of the time when the strings and clusters are maximum, which occurs in the late-beta-relaxation regime of the intermediate scattering function, follows a linear relationship with 1/TS(conf), in agreement with the AG prediction for the relationship between the configurational entropy and the characteristic time for the liquid to undergo a transition to a new configuration. Since strings are the basic elements of the clusters, we propose that strings are a more appropriate measure of the minimum size of a CRR that leads to configurational transitions. That the cluster size also has an inverse relationship with S(conf) may be a consequence of the fact that the clusters are composed of strings.

Journal Article↗

PubMed1999

Quasispecies of hepatitis C virus in serum and in three different parts of the liver of patients with chronic hepatitis.

Hepatitis C virus (HCV) has been known to infect hosts as a quasispecies. Several reports have shown this using serum samples, but there is little information about quasispecies in the liver. In this study, we evaluated quasispecies in serum and in 3 different parts of the liver in 8 patients with varying severity of chronic hepatitis C by calculating nucleotide diversity, entropy, type of substitution and by phylogenetic analysis. Nucleotide diversity of HCV was different in each sample and ranged from 0.37% +/- 0.31% to 4.10% +/- 1.06%. However, the degree of HCV diversity in serum correlated with that in the liver in each patient (P <.01). Common HCV clones were found both in serum and liver samples in all 6 noncirrhotic patients, but all serum clones were different from the clones from the 2 cirrhotic livers. Phylogenetic analysis showed that the degree of genetic diversity of HCV among the 3 liver samples was significantly high in the 4 patients with fibrosis. These genetic compartmentalizations of HCV did not depend on the type of substitution or the viral load of each liver sample. HCV quasispecies within the liver may be closely related to the viral life cycle and the pathogenesis of persistent infection of HCV.

Adult↗

PubMed2001

Diversity of hepatitis C virus quasispecies evaluated by denaturing gradient gel electrophoresis.

Denaturing gradient gel electrophoresis (DGGE) was used to study the diversity of hepatitis C virus (HCV) quasispecies. Optimized DGGE running conditions were applied to screen for variations in sequences cloned from amplicons originating from the nonstructural 5b (NS5b) gene of HCV in blood of hemophilia patients, intravenous drug users, and blood donors (five specimens from each study group, ca. 40 clones studied per specimen). Clones identified by DGGE as unique were sequenced. NS5b sequence entropy and mean genetic distance in hemophiliacs did not differ significantly from those in the other groups, pointing to a lack of correlation between HCV diversity and the multiplicity of past HCV exposures. DGGE was also applied to investigate variation in the HCV envelope 2/hypervariable region 1 (E2/HVR-1) in serum samples serially taken from two patients during the seroconversion phase of HCV infection. E2/HVR-1 sequence entropy changes were small and not correlated with rising anti-HCV antibody levels, reflecting mutational changes not mediated by antibody selection.

Base Sequence↗

PubMed1995

Decomposition of interaction free energies in proteins and other complex systems.

A recent analysis of Mark and van Gunsteren has questioned the validity of separating different free energy components in proteins, or indeed in any complex system. The separability of free energy terms is re-examined from both a theoretical and a numerical perspective. Using a power series expansion of the free energy, it is found that the leading terms are free energy components that arise from individual contributions to the Hamiltonian ("in situ" free energies). The energetic part of an in situ free energy component is given by the ensemble average of the corresponding Hamiltonian component, while the leading term in the entropic part, which was missing in the analysis of Mark and van Gunsteren, is given by the mean square fluctuation. In addition there are correlations between fluctuations in each Hamiltonian component, which give rise to a coupling, or correlation entropy. A simple system, whose configurational degrees of freedom can be completely sampled, was examined in order to determine the relative sizes of these different contributions to the free energy. Under certain conditions, the change in system free energy observed when a particular component of the Hamiltonian is removed or altered is well approximated by the change in the in situ free energy of that component. In practical terms, this allows one in these cases to separate out different free energy contributions.

Energy Transfer↗

PubMed2002

Solution synthesis of gadolinium nanoparticles.

Gadolinium nanoparticles have been produced at subambient temperature by alkalide reduction. The nanoparticles display maxima in the temperature dependence of their magnetization, cooled in the absence of an applied external field, at T(max) of 5.0 and 17.5 K for unheated samples and samples annealed at 1000 degrees C for 4 h, respectively. Field cooled behavior deviates at temperatures slightly above T(max), increasing at lower temperature. Curie-Weiss law fits of the high-temperature data yield magnetic moments in close agreement with those expected for noninteracting Gd(3+) ions, suggesting that the behavior seen is due to a magnetic transition rather than superparamagnetism. Magnetization is linearly dependent on field at temperatures higher than 7-8 times T(max) and shows remanence-free hysteresis at lower temperature, suggesting metamagnetism. Some annealed samples show evidence of additional ferromagnetic interactions below approximately 170 K. Magnetic entropy curves generated from magnetization data are consistent with that expected for a paramagnet.

Journal Article↗

PubMed2003

Folding a protein in a computer: an atomic description of the folding/unfolding of protein A.

We study the folding mechanism of a three-helix bundle protein at atomic resolution, including effects of explicit water. Using replica exchange molecular dynamics we perform enough sampling over a wide range of temperatures to obtain the free energy, entropy, and enthalpy surfaces as a function of structural reaction coordinates. Simulations were started from different configurations covering the folded and unfolded states. Because many transitions between all minima at the free energy surface are observed, a quantitative determination of the free energy barriers and the ensemble of configurations associated with them is now possible. The kinetic bottlenecks for folding can be determined from the thermal ensembles of structures on the free energy barriers, provided the kinetically determined transition-state ensembles are similar to those determined from free energy barriers. A mechanism incorporating the interplay among backbone ordering, sidechain packing, and desolvation arises from these calculations. Large Phi values arise not only from native contacts, which mostly form at the transition state, but also from contacts already present in the unfolded state that are partially destroyed at the transition.

Biophysical Phenomena↗

PubMed2005

The effects of high-frequency oscillations in hippocampal electrical activities on the classification of epileptiform events using artificial neural networks.

The existence of hippocampal high-frequency electrical activities (greater than 100 Hz) during the progression of seizure episodes in both human and animal experimental models of epilepsy has been well documented (Bragin A, Engel J, Wilson C L, Fried I and Buzsáki G 1999 Hippocampus 9 137-42; Khosravani H, Pinnegar C R, Mitchell J R, Bardakjian B L, Federico P and Carlen P L 2005 Epilepsia 46 1-10). However, this information has not been studied between successive seizure episodes or utilized in the application of seizure classification. In this study, we examine the dynamical changes of an in vitro low Mg2+ rat hippocampal slice model of epilepsy at different frequency bands using wavelet transforms and artificial neural networks. By dividing the time-frequency spectrum of each seizure-like event (SLE) into frequency bins, we can analyze their burst-to-burst variations within individual SLEs as well as between successive SLE episodes. Wavelet energy and wavelet entropy are estimated for intracellular and extracellular electrical recordings using sufficiently high sampling rates (10 kHz). We demonstrate that the activities of high-frequency oscillations in the 100-400 Hz range increase as the slice approaches SLE onsets and in later episodes of SLEs. Utilizing the time-dependent relationship between different frequency bands, we can achieve frequency-dependent state classification. We demonstrate that activities in the frequency range 100-400 Hz are critical for the accurate classification of the different states of electrographic seizure-like episodes (containing interictal, preictal and ictal states) in brain slices undergoing recurrent spontaneous SLEs. While preictal activities can be classified with an average accuracy of 77.4 +/- 6.7% utilizing the frequency spectrum in the range 0-400 Hz, we can also achieve a similar level of accuracy by using a nonlinear relationship between 100-400 Hz and <4 Hz frequency bands only.

Action Potentials↗

PubMed1998

Follicle-stimulating hormone is secreted more irregularly than luteinizing hormone in both humans and sheep.

Recently introduced statistical tools capable of discerning differences between the pattern of luteinizing hormone (LH) secretion and that of follicle-stimulating hormone (FSH) could be valuable in understanding ovulation and menopause, and ultimately in making diagnostic decisions and treating infertility and polycystic ovary syndrome. We assessed the validity and scope of the hypothesis that FSH is secreted more irregularly than LH in ewes and fertile women. We compared secretory irregularity of LH to that of FSH in both ovariectomized ewes (n = 7) and women of proven fertility (n = 5) during the follicular and luteal phases of their reproductive cycles. In each sheep, time series from both hypophyseal portal blood (HPB) and peripheral blood were evaluated in 72 samples obtained every 5 min; in each human, both luteal and follicular periods were studied in 192 samples obtained every 7.5 min. To quantify serial irregularity, we used approximate entropy (ApEn), a scale- and model-independent statistic. FSH secretion was consistently more irregular than that of LH in each subject. For sheep HPB, ApEn(FSH) = 1.415+/-0.097 was larger than ApEn(LH) = 0. 822+/-0.213, P < 0.0001 (mean+/-SD, paired t test). This difference persisted peripherally: ApEn(FSHper) = 1.431+/-0.101 > ApEn(LHper) = 1.252+/-0.086, P = 0.024. In women, ApEn(FSH) = 1.467+/-0.217 > ApEn(LH) = 0.923+/- 0.305, P < 0.0001. ApEn(FSH) > ApEn(LH) in 100% of women (peripheral) and sheep HPB. Secretion during the follicular phase was more irregular than during the luteal phase for both FSH and LH (P < 0.01). LH mean level secretion showed a wake/sleep difference in women, P < 0.005, with higher values awake. The consistency and statistical significance of these findings suggest that this LH/FSH difference may be broadly based within higher mammals. Ranges of normative and abnormal regularity values of LH, FSH, and their difference can be used in a number of settings, both (currently) research and (potentially ultimately) clinical milieus.

Animals↗

PubMed2006

GH deficiency in patients irradiated for acromegaly: significance of GH stimulatory tests in relation to the 24 h GH secretion.

BACKGROUND: Radiotherapy for pituitary adenomas frequently leads to GH deficiency (GHD). The characteristics of GH secretion in GHD induced by postoperative radiotherapy for acromegaly are not known. HYPOTHESIS: In the long term, stimulated and spontaneous GH release is not different between patients with GHD treated by postoperative radiotherapy for acromegaly or for other pituitary adenomas. DESIGN/SUBJECTS: We compared the characteristics of basal and stimulated GH secretion in patients with GHD, who had previously received adjunct radiotherapy after surgery for GH-producing adenomas (n=10) vs for other pituitary adenomas (n=10). All patients had a maximal GH concentration by insulin tolerance test (ITT) of 3 microg/l or less, compatible with severe GHD. Mean time after radiation was 17 and 18.7 years, respectively. Stimulated GH release was also evaluated by infusion of growth hormone-releasing hormone (GHRH), GHRH-arginine and arginine, and spontaneous GH by 10 min blood sampling for 24 h. Pulse analyses were performed by Cluster and approximate entropy. OUTCOMES: There were no differences between both patient groups in stimulated GH concentrations in any test. Spontaneous GH secretion was not different between both patient groups, including basal GH release, pulsatility and regularity. Pulsatile secretion was lost in two acromegalic and three non-acromegalic patients. Insulin-like growth factor-I (IGF-I) was below -2 s.d. score in nine patients in each group. CONCLUSION: Acromegalic patients treated by surgery and postoperative radiotherapy with an impaired response to the ITT do not differ, in the long term, in GH secretory characteristics from patients treated similarly for other pituitary tumors with an impaired response to the ITT. The ITT (or the GHRH-arginine test) is therefore reliable in establishing the diagnosis of GHD in patients treated for acromegaly by surgery and radiotherapy.

Acromegaly↗

PubMed2004

Converging free energy estimates: MM-PB(GB)SA studies on the protein-protein complex Ras-Raf.

Estimating protein-protein interaction energies is a very challenging task for current simulation protocols. Here, absolute binding free energies are reported for the complex H-Ras/C-Raf1 using the MM-PB(GB)SA approach, testing the internal consistency and model dependence of the results. Averaging gas-phase energies (MM), solvation free energies as determined by Generalized Born models (GB/SA), and entropic contributions calculated by normal mode analysis for snapshots obtained from 10 ns explicit-solvent molecular dynamics in general results in an overestimation of the binding affinity when a solvent-accessible surface area-dependent model is used to estimate the nonpolar solvation contribution. Applying the sum of a cavity solvation free energy and explicitly modeled solute-solvent van der Waals interaction energies instead provides less negative estimates for the nonpolar solvation contribution. When the polar contribution to the solvation free energy is determined by solving the Poisson-Boltzmann equation (PB) instead, the calculated binding affinity strongly depends on the atomic radii set chosen. For three GB models investigated, different absolute deviations from PB energies were found for the unbound proteins and the complex. As an alternative to normal-mode calculations, quasiharmonic analyses have been performed to estimate entropic contributions due to changes of solute flexibility upon binding. However, such entropy estimates do not converge after 10 ns of simulation time, indicating that sampling issues may limit the applicability of this approach. Finally, binding free energies estimated from snapshots of the unbound proteins extracted from the complex trajectory result in an underestimate of binding affinity. This points to the need to exercise caution in applying the computationally cheaper "one-trajectory-alternative" to systems where there may be significant changes in flexibility and structure due to binding. The best estimate for the binding free energy of Ras-Raf obtained in this study of -8.3 kcal mol(-1) is in good agreement with the experimental result of -9.6 kcal mol(-1), however, further probing the transferability of the applied protocol that led to this result is necessary.

Calorimetry↗

PubMed2005

Edgeworth approximation of multivariate differential entropy.

We develop the general, multivariate case of the Edgeworth approximation of differential entropy and show that it can be more accurate than the nearest-neighbor method in the multivariate case and that it scales better with sample size. Furthermore, we introduce mutual information estimation as an application.

Algorithms↗

PubMed1997

Interactions between Talc Particles and Water and Organic Solvents

Three talc samples have been studied by adsorption and immersion methods after a classical characterization of their properties. The combination of adsorption isotherms and of immersion measurements allows the calculation of enthalpies and entropies of adhesion. The studied talcs are characterized as "middle energy" solids. The differences between the particle shapes of the different samples are shown to be of great importance, indicating a linkage between cristallinity and surface properties. The whole results are explained by the influence of intermolecular forces such as acid-base interactions in the interfacial layer. Copyright 1997 Academic Press. Copyright 1997Academic Press

Journal Article↗

PubMed2006

Information entropy of humpback whale songs.

The structure of humpback whale (Megaptera novaeangliae) songs was examined using information theory techniques. The song is an ordered sequence of individual sound elements separated by gaps of silence. Song samples were converted into sequences of discrete symbols by both human and automated classifiers. This paper analyzes the song structure in these symbol sequences using information entropy estimators and autocorrelation estimators. Both parametric and nonparametric entropy estimators are applied to the symbol sequences representing the songs. The results provide quantitative evidence consistent with the hierarchical structure proposed for these songs by Payne and McVay [Science 173, 587-597 (1971)]. Specifically, this analysis demonstrates that: (1) There is a strong structural constraint, or syntax, in the generation of the songs, and (2) the structural constraints exhibit periodicities with periods of 6-8 and 180-400 units. This implies that no empirical Markov model is capable of representing the songs' structure. The results are robust to the choice of either human or automated song-to-symbol classifiers. In addition, the entropy estimates indicate that the maximum amount of information that could be communicated by the sequence of sounds made is less than 1 bit per second.

Acoustics↗

PubMed1981

[Chemical modification of proteins. 7. Effect of succinylation on some physico-chemical and functional properties of casein].

Succinylation of amino groups of the casein complex results in a spontaneous dissociation of the protein into low-molecular 1.8-S components. Succinylated samples of casein are characterized by a higher electrophoretic mobility of the components in alkaline mediums and by a lower mobility in acidic buffer systems. The anodic migration in alkaline buffer systems increases depending on the degree of modification. This effect is more pronounced for the beta-casein than for the alpha s-casein fraction. In the potentiometric acid-base titration of the modified casein a hysteresis occurs during the back-titration. Increasing with the degree of modification, this effect points to a more or less strong break-up of the structure (entropy production). The solubility minimum of casein is shifted to lower pH values by succinylation. Samples succinylated to 90 or more per cent of the amino groups are insoluble at pH less than 3.5. Succinylated casein shows at a moderate degree of substitution (approximately equal to 40%) a highly increased water adsorption capacity. The oil adsorption capacity of the protein decreases after succinylation. Amongst the modified casein samples those ones with the highest water adsorption show the highest oil adsorption, too. The emulsifying capacity of low (approximately equal to 20%) succinylated casein samples decreases below the value determined for the unmodified protein. At higher modified samples the emulsifying capacity increases as the degree of succinylation increases. The emulsifying activity and emulsion stability of modified samples are lower than that measured for the parent protein. The foaming capacity of the casein is not improved by succinylation.

Caseins↗

PubMed2004

A trimer model for water.

A statistical model for water is studied, where the molecules are represented by trimers in a triangular lattice. Each atom of a water molecule occupies a single site on the lattice, and the HOH bond angle is assumed to be 120 degrees. The molecules can interact via three different potentials: the excluded volume interaction, which prevents two molecules from occupying the same atom site, an attractive potential between any two nearest-neighbor atoms belonging to different molecules (the van der Waals interaction), and the hydrogen bond interaction, which occurs only for a particular orientation and displacement of a pair of molecules. The model is investigated by means of Monte Carlo simulations in the canonical and grand canonical ensembles. The Metropolis and the entropic sampling algorithms are used to obtain the thermodynamics of the system. We find that the entropic sampling prescription is the most efficient algorithm of them, providing information about the entropy and free energy of the system in a straightforward way. The curves for the polarization, number of hydrogen bonds, specific heat, and cumulant of energy were obtained as a function of the temperature and total concentration. In addition, the entropy of the noninteracting version of the model is compared to that of the angular trimers in a square lattice and triangles in a triangular lattice.

Journal Article↗