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Results for “Structural equation modeling”

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PubMed2026

Sugar-sweetened beverage consumption and incident depression: an exploratory multi-omics analysis of candidate biological mediators.

BACKGROUND: Depression is a leading cause of mental and physical disability globally, with its onset and progression influenced by a complex interplay of dietary, psychological, and biological factors. Recent research suggests a link between sugar-sweetened beverage (SSB) consumption and depression risk, although the potential biological pathways underlying this association remain poorly understood. METHODS: This study utilized data from 192,045 participants in the UK Biobank to examine the prospective association between SSB consumption and incident depression using Cox proportional hazards models. SSBs were defined as the sum of five beverage categories assessed via the Oxford WebQ 24-hour dietary recall. Directional consistency of the association was further examined across three external supporting datasets encompassing diverse populations: NHANES, YRBSS, and the Lianyungang Municipal School Health and Risk Factor Surveillance Study Dataset. We further investigated whether proteins, metabolites, inflammatory markers, and brain imaging phenotypes may serve as candidate mediators statistically consistent with mediation of the SSB-depression association. RESULTS: High SSB consumption was associated with an 18% higher risk of incident depression compared with non-consumers (HR = 1.18; 95% CI: 1.11-1.25), with consistent directional associations observed across external supporting datasets. A plasma proteomic signature comprising 229 proteins was constructed using elastic net regularization and was associated with an increased risk of incident depression. Exploratory mediation analyses identified 72 proteins, 36 metabolites, and 5 inflammatory markers as candidate mediators, with IL1RN showing the strongest protein-level candidate mediating effect (9.6%), and Unsaturation and neutrophil count showing the strongest metabolite- and inflammatory marker-level effects, respectively. CONCLUSIONS: This study provides preliminary evidence that proteins, metabolites, and inflammatory markers may serve as candidate mediators statistically consistent with mediation of the association between SSB consumption and incident depression. These findings are exploratory and hypothesis-generating, and future experimental studies are needed to validate these candidate pathways and assess their potential as targets for dietary interventions in depression prevention.

Humans↗

PubMed1978

Periodically interspersed repetitive sequences may govern higher-order DNA coiling in chromatin and chromosomes.

The interspersed periodic arrangement of repetitive and unique sequences in eukaryotic DNAs is proposed as the underlying molecular basis for higher-order DNA coiling in chromatin and mitotic chromosomes. It is assumed that (i) two types of interspersed repetitive sequences are distributed strictly periodically throughout the genome, splitting the single copy DNA into short and long periods respectively in such a pattern that each long period is composed of a definite number of short periods and repeats, (ii) the short and long periods make the turn lengths of the solenoid and supersolenoid structures respectively determining their diameters; (iii) specific proteins interact with each type of repeats making cross ties between nearby repeats of each class helping to form, constrain, and stabilize the solenoid and the supersolenoid structures: (iv) the long period may be equated with the basic chromomere unit. The model predicts: (i) splitting of contiguous genes by inserted repetitive sequences; and (ii) two types of genomes differing in the hierarchy of DNA coiling.

Animals↗

PubMed1979

Conformational requirements at the prostaglandin cyclooxygenase receptor site: a template for designing non-steroidal anti-inflammatory drugs.

When space-filling models of the peroxy radical precursor of PGG were compared with models of 2(S)-(3-chloro-4-cyclohexylphenyl) propionic acid and other acidic cyclooxygenase inhibitors several common structural features were revealed. This led us to propose a template for designing non-steroidal anti-inflammatory drugs (NSAID's) based on the conformation of the peroxy radical immediately prior to its cyclisation to PGG. The template can be equated with a complementary cyclooxygenase receptor site.

Anti-Inflammatory Agents↗

PubMed2025

Gene regulatory network structure informs the distribution of perturbation effects.

Gene regulatory networks (GRNs) govern many core developmental and biological processes underlying human complex traits. Even with broad-scale efforts to characterize the effects of molecular perturbations and interpret gene coexpression, it remains challenging to infer the architecture of gene regulation in a precise and efficient manner. Key properties of GRNs, like hierarchical structure, modular organization, and sparsity, provide both challenges and opportunities for this objective. Here, we seek to better understand properties of GRNs using a new approach to simulate their structure and model their function. We produce realistic network structures with a novel generating algorithm based on insights from small-world network theory, and we model gene expression regulation using stochastic differential equations formulated to accommodate modeling molecular perturbations. With these tools, we systematically describe the effects of gene knockouts within and across GRNs, finding a subset of networks that recapitulate features of a recent genome-scale perturbation study. With deeper analysis of these exemplar networks, we consider future avenues to map the architecture of gene expression regulation using data from cells in perturbed and unperturbed states, finding that while perturbation data are critical to discover specific regulatory interactions, data from unperturbed cells may be sufficient to reveal regulatory programs.

Gene Regulatory Networks↗

PubMedDate not supplied

[Spike transmission in statistical neuronal ensembles. Induced epileptic focus in a model of hippocampal field CA3].

In a spatially heterogeneous model the transition to supercritical phase was investigated as to the parameter characterizing the activation level of the pyramidal cells related to one another assuming the nonuniformity radius to be R0 = const. This is a transition from spontaneous activity to epileptoid bursts. Before the onset of epileptoid bursts the region of stochastic nonequilibrium of solutions is developed likely to produce pathologic dynamic patterns. With further increase of the activation parameter the system comes to epileptoid state. This synchronized firing of pyramidal cells is accompanied with phases of inhibition. A decrease in the nonuniformity radius leads to the formation of an epileptic focus. It is a dissipative structure. The evolution of it is not further followed, since the transport equations do not include its dynamics.

Hippocampus↗

PubMed1979

The [18F]fluorodeoxyglucose method for the measurement of local cerebral glucose utilization in man.

A method has been developed to measure local glucose consumption in the various structures of the brain in man with three-dimensional resolution. [18F]-2-deoxy-2-fluoro-D-glucose is used as a tracer for the exchange of glucose between plasma and brain and its phosphorylation by hexokinase in the tissue. A mathematical model and derived operational equation are used which enable local cerebral glucose consumption to be calculated in terms of the following measurable variables. An intravenous bolus of [18F]-2-deoxy-2-fluoro-D-glucose is given and the arterial specific activity monitored for a predetermined period of from 30 to 120 minutes. Starting at 30 minutes, the activity in a series of sections through the brain is determined with three-dimensional resolution by an emission tomographic scanner. The method was used to measure local cerebral glucose consumption in two normal volunteers. The values in gray matter structures range from 5.79 mg/100 g per minute in the cerebellar cortex to 10.27 in the visual cortex, whereas, in white matter structures, the values range from 3.64 mg/100 g per minute in the corpus callosum to 4.22 in the occipital lobe. Average values for gray matter, white matter, and whole brain metabolic rates, calculated as a weighted average based on the approximate volume of each structure, are 8.05, 3.80, and 5.90 mg/100 g per minute, respectively. The value of 5.9 mg/100 g per minute compares favorably with values previously reported.

Adult↗

PubMed1975

Magnetorheography; calculation of blood flow from surface induced potentials.

This research is an attempt to measure blood flow without doing any hurt to the body. When the body is placed in a high magnetic field the blood-flow-induced electromotive force (EMF) can be detected with the surface electrodes using the same principle as an electromagnetic flow-meter. This blood flow measurement is named magnetorheography (its recording: MRG). A theoretical analysis of the potential in the tissue shows that blood flow can be calculated from the surface-induced EMF (MRG) without measuring the radius and the depth of the vessel from the skin surface, when the surface is fairly flat in the vicinity of the vessel. A model experiment verified the theory. In order to apply the theory to the measurement in an in situ situation, a structural coefficient was introduced which is related to the external shape, internal tissue compositions and their impedance of the body. Using such a coefficient the flow calculated from MRG, by an equation including the coefficient, agreed with the flow actually recorded. In experiments on the thighs of 8 dogs weighing 7 to 17 Kg, MRG proved to be proportional to arterial flow and the coefficients were approximately constant. These results indicate that blood flow may possibly be estimated by the calculation from MRG.

Animals↗

PubMed1975

Nonlinear regression methods in design of experiments and mathematical modelling. Applications to the analysis of the steady-state kinetics of glutathione reductase.

A branching reaction pathway involving a ping pong and a sequential loop has been proposed for glutathione reductase (Biochem. Biophys. Res. Commun. 53 (1973) 1151). In the present investigation nonlinear regression methods have been applied in the fitting of rate equations to experimental data to test the validity of the model proposed and to discriminate between alternative mathematical models (cf. FEBS Lett. 26 (1972) 252). In the best rate law, some of the parameters were numerically redundant. Therefore, a feature-wise analysis of the rate equation was carried out by varying one substrate concentration at a time. The overall strategy used was a cyclic procedure involving: experimentation - analysis of data - modelling - design of experiments - new experimentation etc. Consideration was given to the experimental error structure and to the importance of weighting in the regression analysis. In the design of experiments for discrimination between rival models, a previously defined discrimination function was used. The results of the analysis support the branching reaction scheme proposed for glutathione reductase.

Glutathione↗

PubMed1977

Quantitative structure-activity relationships in centrally acting imidazolidines structurally related to clonidine.

The central hypotensive action of clonidine and 26 structurally related derivatives was quantified by means of an ED30 obtained from dose-response curves following intravenous administration to anesthetized, normotensive rats. Multiple regression analyses of the biological data yielded correlation equations comprising a relationship between hypotensive activity and molecular structure. In the equations the pharmacokinetics together with the actual engagement of the central alpha-adrenoceptor are accounted for. More detailed characteristics of this central alpha-adrenoceptor emerged from correlation studies in which new ED30 values, associated with brain concentrations, were employed. The use of this biological parameter at the alpha-adrenoceptor level allowed the presentation of a hypothetical working model for the mechanism of interaction between this receptive site and clonidine-like imidazolidines.

Animals↗

PubMed1978

The epidemic in a closed population with all susceptibles equally vulnerable; some results for large susceptible populations and small initial infections.

Kendall's (1956) approach to the 'general' epidemic is generalized by dropping the assumptions of constant infectivity and random recovery or death of ill individuals. A great deal of attention is paid to the biological background and the heuristics of the model formulation. Some new results are: (1) the derivation of Kermack's and McKendrick's integral equation from what seems to be the most general set of assumptions in section 2.2, (2) the use of Kermack's and McKendrick's final value equation to arrive at a finite time version of the threshold theorem for the general case, comparable to the for the case of only one Markovian state of illness in section 2.5, (3) the analysis of the behaviour of the solutions of the integral equation when the starting infection approaches zero in section 2.7, (4) the derivation of the probability structure of a general branching process, after conditioning on extinction in section 3.6, (5) the statement of the generalized versions of Kendall's ideas in the form of precise limit conjectures in section 4, (6) the derivation of a closed expression for the limit epidemic resulting from (3) in appendix 4.

Disease Outbreaks↗

PubMed1979

Multivariate analysis and quantitative structure-activity relationships. Inhibition of dihydrofolate reductase and thymidylate synthetase by quinazolines.

Quantitative structure-activity relationships (QSAR) have been established for the inhibition of dihydrofolate reductase and thymidylate synthetase by 2,4-diaminoquinazoline-glutamic acid analogues. For dihydrofolate reductase from both human acute lymphocytic leukemia cells and murine L1210R cells, QSAR's obtained with 50 quinazolines were similar. On the other hand, for the inhibition of thymidylate synthetase from murine L1210S cells and from Lactobacillus casei, QSAR's formulated on the basis of data measured with 33 compounds were different, indicating that the two enzymes are dissimilar. The use of multivariate statistics including cluster analysis, factor analysis, and discriminant analysis is shown to facilitate the formulation of a satisfactory correlation equation. The procedure is demonstrated by the development of QSAR for the inhibition of thymidylate synthetase.

Analysis of Variance↗

PubMed1979

Ames test of 1-(X-phenyl)-3,3-dialkyltriazenes. A quantitative structure-activity study.

The mutagenicity of 1-(X-phenyl)-3,3-dialkyltriazenes was tested in the Ames test using Salmonella typhimurium TA92. The following quantitative structure-activity relationship (QSAR) was formulated: log 1/C = 1.09 log P -1.63 sigma+ + 5.58. In this expression, C is the molar concentration of triazene producing 30 mutations/10(8) bacteria above background. This equation is based on 17 congeners and has a correlation coefficient of 0.974. The QSAR for mutagenicity is compared with QSAR for antileukemia action and toxicity (LD50) in mice. The mutagenicity of aflatoxin B (log 1/C = 9.5) and DTIC (log 1/C = 3.0) have also been determined.

Animals↗

PubMed1976

[Mathematical simulation of the respiratory system (author's transl)].

The respiratory system is described as a feedback control system. The controller consists of the peripheral chemoreceptors and the central chemosensitive structures, the respiratory centre in the medulla oblongata and the thorax-lung pump which they drive. The controlled system is comprised of three compartments (lung, brain and the remaining tissue) connected by the blood circulation. The controlled values are arterial pH and arterial O2 partial pressure and cerebral extracellular pH. Earlier models have been improved by: (1) the dead space description, (2) the thermodynamic formulation of the CO2 dissociation equation and the simple but accurate O2 dissociation equation of the blood, (3) the alteration of the CO2 dissociation equation for the brain and the remaining tissue to accommodate recent results, (4) the application of the one-receptor-theory of central chemosensitivity, (5) the pH dependence of brain circulation, (6) the bicarbonate exchange between blood and extracellular fluid of the brain and (7) the introduction of variable circulation times. Respiratory and metabolic disturbances of the respiratory system are analyzed. The mathematical formulation of the respiratory system is a differential difference equation system. In the steady state the experimental results are reproduced fairly well. A slight discrepancy is found in the simulation of metabolic acidosis. Apparently we have assumed the sensitivity of the peripheral chemoreceptors to be too large so that the respiratory response is not correctly predicted. In the numerical solution there is an overshoot in the on-transient and a damped oscillation in the off-transient of the alveolar CO2 partial pressure during respiratory acidosis. We have varied the parameters to make deviations small. The best agreement seems to result, if the central threshold is near the normal extracellular pH of the brain. A further deviation from experimental findings is that the cerebral CO2 and H+ concentration, the blood circulation of the brain, the alveolar O2 partial tension and the ventilation show a slight oscillation in the off-transient. Except for these discrepancies the experimental results, especially the stability of the extracellular pH of the brain, are reproduced fairly well. During hypoxia there are deviations form the experimental results if the central residual activity is constant and the central threshold deviates from the normal extracellular pH of the brain. But if the central residual activity is pH dependent and if the central threshold is equal to the normal extracellular pH of the brain, then the time course of VE and the other variables agree fairly well with experimental results. There is also a good correspondence between the theoretical and experimental data during hyperoxia. During metabolic acidosis the time constant of the bicarbonate exchange between blood and extracellular fluid of the brain is important. If a time constant of one minute is assumed, then the predicted and the experimental results correspond sufficiently well.

Bicarbonates↗

PubMed1977

Dynamics of folded proteins.

The dynamics of a folded globular protein (bovine pancreatic trypsin inhibitor) have been studied by solving the equations of motion for the atoms with an empirical potential energy function. The results provide the magnitude, correlations and decay of fluctuations about the average structure. These suggest that the protein interior is fluid-like in that the local atom motions have a diffusional character.

Aprotinin↗

PubMed1976

Gastric emptying of organic acids in the dog.

Test meals of 300 ml. of six different organic acids were instilled into the stomach of six healthy mongrel dogs. Citric, acetic, propionic, lactic, tartaric and succinic acid were given in 50, 100, 150, and 200 mN concentrations. 2. During the emptying process, the gastric contents were aspirated and immediately re-instilled at 10 min intervals, and the following parameters were recorded: volume, concentration of the organic anion, pH, hydrogen ion concentration and osmolarity. 3. By multiple stepwise regression analysis, the combination of parameters which most effectively determines gastric emptying rate was found to be: concentration of the organic anion, followed by intragastric volume and number of previous test meals given on the same day. These three parameters appear in the equation for gastric emptying rate in which the individual characteristic of each acid is expressed by a constant. 4. Among the various acids, inhibition of emptying rate increases with rising number of carboxylic groups of the acid and its molecular weight. 5. After proximal gastric vagotomy, emptying rate of organic acids is independent of volume, and emptying approaches an exponential pattern. 6. A model for gastric emptying of organic acids with at least three different receptors is proposed: one for the structure of the organic acid, one for concentration and one for intragastric volume.

Acetates↗

PubMedDate not supplied

[Propagation of spikes in statistical neuron ensembles. I. Concept of phase transitions].

A system of two coupled integro-differential equations for the propagation of sipkes is presented. A qualitative consideration of the system shows possibility of concentrational phase transition in the neuron ensemble from the state of spontaneous firing to the strong periodic oscilltation activity. Naer the point of the phase transition the neuron ensemble becomes labile, which maintains appropriate conditons for the existence of mosaic structures in the neuron network.

Models, Neurological↗

PubMed1978

l/f noise in black lipid membranes induced by ionic channels formed by chemically dimerized gramicidin A.

The noise behavior of lipid bilayer membranes, doped with a chemically dimerized gramicidin A, was investigated. In contrast to normal gramicidin A, which generates a Lorentzian type power spectrum due to the formation and disappearance of conducting dimers, the current power spectrum density Sm(f) obtained with this gramicidin A derivative showed over several orders of magnitude a clear l/f behavior. The intensity of this l/f component was analyzed as a function of the membrane-applied voltage, membrane resistance, electrolyte concentration, and composition. The relationship between the mean-square fluctuation in current and the membrane current mean value was found to follow Hooge's equation, i.e., deltaI2 = alphaI2m/Nf where N is the number of channels and alpha is a constant equal to 1.0 X 10(-2). It is suggested that a l/f type noise was observed because the chemically dimerized form of gramicidin A produces long lasting cation selective channels.

Gramicidin↗

PubMed1977

Induced EM fields inside human bodies irradiated by EM waves of up to 500 MHz.

In this paper, the internal EM field and the specific absorption rate of EM energy induced inside human bodies by EM waves of up to 500 MHz are theoretically quantified based on a tensor integral equation method. Numerical results for a realistic model of a man of 177 cm high irradiated by EM waves of various frequencies and of vertical and horizontal polarizations are presented. The resonance phenomenon and the effect of body heterogeneity on the induced field are studied. Some theoretical results are compared with existing experimental results.

Electromagnetic Fields↗