PubMed Health⌕ Search

Biomedical subjects

R S Zhang

Publications and source records attributed to R S Zhang.

At least 19 recordsLinked to original sources

Quantitative structure-toxicity relationships (QSTRs): a comparative study of various non linear methods. General regression neural network, radial basis function neural network and support vector machine in predicting toxicity of nitro- and cyano- aromatics to Tetrahymena pyriformis.

Prediction of toxicity of 203 nitro- and cyano-aromatic chemicals to Tetrahymena pyriformis was carried out by radial basis function neural network, general regression neural network and support vector machine, in non-linear response surface methodology. Toxicity was predicted from hydrophobicity parameter (log Kow) and maximum superdelocalizability (Amax). Special attention was drawn to prediction ability and robustness of the models, investigated both in a leave-one-out and 10-fold cross validation (CV) processes. The influence that the corresponding changes in the learning sets during these CV processes could have on a common external test set including 41 compounds was also examined. This allowed us to establish the stability of the models. The non linear results slightly outperform (as expected) multilinear relationships (MLR) and also favourably compete with various other non linear approaches recently proposed by Ren (J. Chem. Inf. Comput. Sci., 43 1679 (2003)).

Animals↗

Prediction of the tissue/blood partition coefficients of organic compounds based on the molecular structure using least-squares support vector machines.

The accurate nonlinear model for predicting the tissue/blood partition coefficients (PC) of organic compounds in different tissues was firstly developed based on least-squares support vector machines (LS-SVM), as a novel machine learning technique, by using the compounds' molecular descriptors calculated from the structure alone and the composition features of tissues. The heuristic method (HM) was used to select the appropriate molecular descriptors and build the linear model. The prediction result of the LS-SVM model is much better than that obtained by HM method and the prediction values of tissue/blood partition coefficients based on the LS-SVM model are in good agreement with the experimental values, which proved that nonlinear model can simulate the relationship between the structural descriptors, the tissue composition and the tissue/blood partition coefficients more accurately as well as LS-SVM was a powerful and promising tool in the prediction of the tissue/blood partition behaviour of compounds. Furthermore, this paper provided a new and effective method for predicting the tissue/blood partition behaviour of the compounds in the different tissues from their structures and gave some insight into structural features related to the partition process of the organic compounds in different tissues.

Least-Squares Analysis↗

The prediction of human oral absorption for diffusion rate-limited drugs based on heuristic method and support vector machine.

Support vector machine (SVM), as a novel machine learning technique, was used for the prediction of the human oral absorption for a large and diverse data set using the five descriptors calculated from the molecular structure alone. The molecular descriptors were selected by heuristic method (HM) implemented in CODESSA. At the same time, in order to show the influence of different molecular descriptors on absorption and to well understand the absorption mechanism, HM was used to build several multivariable linear models using different numbers of molecular descriptors. Both the linear and non-linear model can give satisfactory prediction results: the square of correlation coefficient R(2) was 0.78 and 0.86 for the training set, and 0.70 and 0.73 for the test set respectively. In addition, this paper provides a new and effective method for predicting the absorption of the drugs from their structures and gives some insight into structural features related to the absorption of the drugs.

Administration, Oral↗

QSAR study of natural, synthetic and environmental endocrine disrupting compounds for binding to the androgen receptor.

A large data set of 146 natural, synthetic and environmental chemicals belonging to a broad range of structural classes have been tested for their relative binding affinity (expressed as log (RBA)) to the androgen receptor (AR). These chemicals commonly termed endocrine disrupting compounds (EDCs) present a variety of adverse effects in humans and animals. As assays for binding affinity remains a time-consuming task, it is important to develop predictive methods. In this work, quantitative structure-activity relationships (QSARs) were determined using three methods, multiple linear regression (MLR), radical basis function neural network (RBFNN) and support vector machine (SVM). Five descriptors, accounting for hydrogen-bonding interaction, distribution of atomic charges and molecular branching degree, were selected from a heuristic method to build predictive QSAR models. Comparison of the results obtained from three models showed that the SVM method exhibited the best overall performances, with a RMS error of 0.54 log (RBA) units for the training set, 0.59 for the test set, and 0.55 for the whole set. Moreover, six linear QSAR models were constructed for some specific families based on their chemical structures. These predictive toxicology models, should be useful to rapidly identify potential androgenic endocrine disrupting compounds.

Algorithms↗

QSAR and classification models of a novel series of COX-2 selective inhibitors: 1,5-diarylimidazoles based on support vector machines.

The support vector machine, which is a novel algorithm from the machine learning community, was used to develop quantitation and classification models which can be used as a potential screening mechanism for a novel series of COX-2 selective inhibitors. Each compound was represented by calculated structural descriptors that encode constitutional, topological, geometrical, electrostatic, and quantum-chemical features. The heuristic method was then used to search the descriptor space and select the descriptors responsible for activity. Quantitative modelling results in a nonlinear, seven-descriptor model based on SVMs with root mean-square errors of 0.107 and 0.136 for training and prediction sets, respectively. The best classification results are found using SVMs: the accuracy for training and test sets is 91.2% and 88.2%, respectively. This paper proposes a new and effective method for drug design and screening.

Algorithms↗

Prediction of programmed-temperature retention values of naphthas by artificial neural networks.

It is proposed for the first time a method of prediction of the programmed-temperature retention times of components of naphthas in capillary gas chromatography using artificial neural networks. People are used to predict the programmed-temperature retention time using many formulas such as the integral formula, which requires that four parameters must be determined by calculation or experiments. However the results obtained by the formula are not so good to meet the demand of industry. In order to predict retention time accurately and conveniently, artificial neural networks using five-fold cross-validation and leave-20%-out methods have been applied. Only two parameters: density and isothermal retention index were used as input vectors. The average RMS error for predicted values of five different networks was 0.18, whereas the RMS error of predictions by the integral formula was 0.69. Obviously, the predictions by neural networks were much better than predictions by the formula, and neural networks need fewer parameters than the formula. So neural networks can successfully and conveniently solve the problem of predictions of programmed-temperature retention times, and provide useful data for analysis of naphthas in petrochemical industry.

Chemical Industry↗

[Phylogenetic study of Artemia from China using RAPD and AFLP markers].

We have applied the techniques of RAPD (random amplified polymorphic DNA) and AFLP (amplified fragment length polymorphism) to the analysis of the relationships among Artemia species and strains. RAPD markers were successfully employed to detect diversity and genetic differentiation among four species of brine shrimp: A. franciscana, A. urmiana, A. sinica, and A. parthenogenetica. Seventy, ten-base synthetic oligonucleotides were used to amplify a total of 458 distinct fragments. DNA polymorphisms were found in all the species examined; The highest percentage of polymorphic bands found in A. parthenogenetica, was 28.8 per cent. There are significant differences between bisexual sibling species and parthenogenetic populations. A. parthenogenetica provided 94 specific molecular markers, while bisexual sibling species gave 27 specific molecular markers. A. sinica is a species distinct from the other Old World bisexual species. AFLP were used to analyze 15 Artemia species and strains for genetic diversity. They are extremely sensitive to even a small sequence variation and more polymorphism than RAPD. Using only 10 pairs of primer combinations, we detected 580 AFLP bands of which were polymerphic. The RAPD and AFLP techniques are powerful DNA fingerprinting methods for classification of Artemia species and strains.

Animals↗

Regulation of endometrial blood flow in ovariectomized rats: assessment of the role of nitric oxide.

The purpose of this study was to evaluate the role of nitric oxide (NO) in the maintenance of basal endometrial blood flow of ovariectomized rats and in the increase of endometrial blood flow after administration of estradiol 17beta (E2beta). Endometrial blood flow was repeatedly measured with the H2 gas clearance technique in ovariectomized rats. N(omega)-nitro-L-arginine methyl ester (L-NAME) dose dependently reduced basal endometrial blood flow and increased mean arterial blood pressure and endometrial vascular resistance. E2beta (1 microg/kg i.v.) increased endometrial blood flow and reduced endometrial vascular resistance, which peaked by 2 h after the injection. The vasoconstrictive activity of L-NAME (an inhibitor for NO synthesis) was compared with that of phenylephrine (PE, an alpha-receptor agonist acting through an NO-independent mechanism). Doses of L-NAME (1 and 3 mg/kg i.v.) were matched with those of PE (3.2 and 6.4 mg x kg(-1) x h(-1) i.v.), as they induced an approximately equivalent percent increase in basal endometrial vascular resistance. The percent increases of endometrial vascular resistance in E2beta-treated animals by the two agents in matched doses were also of a similar magnitude. When animals were first treated with L-NAME or PE, E2beta lost the ability to reduce endometrial vascular resistance. Enzyme activity and gene expression of NO synthase in the rat uterine tissue were also examined after E2beta treatment, and no significant changes were observed. These data raise doubts about the role of NO in the regulation of endometrial blood flow after acute administration of E2beta and suggest that other mechanisms may be involved.

Adrenergic alpha-Agonists↗

Glucose-induced islet hyperemia is mediated by nitric oxide.

PURPOSE: To determine whether hyperglycemia affects pancreatic islet microcirculation in vivo and whether nitric oxide is a mediator. METHODS: Islet blood flow was measured before and after infusion of glucose during in vivo microscopy of mouse pancreatic islet. The pancreas of male BALB/c mice was exteriorized and viewed under the microscope utilizing monochromatic transmitted light. The carotid artery and tail vein were cannulated and systemic blood pressure was monitored continuously. Under fluorescent light, a 0.02 mL bolus of 2% fluorescein isothyocyanate (FITC-albumin) was injected intra-arterially and the first pulse of FITC-albumin through an islet capillary was videorecorded. Following equilibration, either glucose or normal saline 300 mg/g of body weight was given intravenously. Five minutes later, a second bolus was given and the second pulse was videorecorded. The study was repeated in the presence of N omega-nitro-L-arginine methyl ester (L-NAME). The FITC-albumin bolus mean transit time (TT) and observed cross time (OCT) through the islet were calculated using slow-motion video analysis of the recorded images. RESULTS: Infusion of glucose resulted in a significant increase in islet blood flow with no change in systemic blood pressure: baseline TT was 20 +/- 1.3 pixel/0.03 sec and baseline OCT was 0.6 +/- 0.04 seconds; during hyperglycemia, TT was 16.1 +/- 1 pixel/0.03 sec, and OCT was 0.48 +/- 0.03 seconds (n = 11, P < 0.05 versus basal via paired t-test). Continuous infusion of L-NAME negated the effect of hyperglycemia on islet blood flow: baseline TT was 20 +/- 1.8 pixel/0.03 sec and OCT was and 0.6 +/- 0.05 seconds; during hyperglycemia, TT was 20 +/- 1.1 pixel/0.03 sec and OCT was 0.6 +/- 0.33 seconds (n = 10; P < 0.05 versus glucose via unpaired t-test).

Animals↗

H2 gas clearance technique for separating rat uterine blood flow into endometrial and myometrial components.

The H2 gas clearance technique was employed to measure uterine blood flow (UBF) in ovariectomized rats. A needle-type platinum electrode (125 microns diam) was inserted into the rat uterine wall to measure the tissue blood flow surrounding the electrode. The electrode can be placed in individual layers of the uterus to measure the endometrial blood flow (EBF) or the myometrial blood flow (MBF). By use of this technique, baseline EBF and MBF were 37.8 +/- 3.53 (n = 21) and 47.2 +/- 4.56 (n = 5) ml.min-1.100 g-1, respectively, with an EBF/MBF ratio of 0.8. Intravenous bolus injection of 17 beta-estradiol (1 microgram/kg) induced a significant increase in UBF. Phenylephrine, an alpha-adrenergic receptor agonist, reduced UBF. In some animals, a second platinum electrode was used to measure gastric mucosal blood flow simultaneously with UBF. While 17 beta-estradiol selectively increased UBF, pentagastrin selectively increased gastric mucosal blood flow. To further validate the baseline UBF distribution between endometrial and myometrial layers, iodo[14C]antipyrine autoradiography was employed. With the iodo[14C]antipyrine technique, the EBF/MBF ratio was 0.91 +/- 0.07 (n = 5), which is similar to that obtained with the H2 gas clearance technique.

Animals↗

Dehatrine, an antimalarial bisbenzylisoquinoline alkaloid from the Indonesian medicinal plant Beilschmiedia madang, isolated as a mixture of two rotational isomers.

Through bioassay-guided separations of the chemical constituents of the Indonesian medicinal plant Beilschmiedia madang BL. a bisbenzylisoquinoline alkaloid was obtained as the major antimalarial principle. The physicochemical properties of the alkaloid were consistent with the proposed structure of dehatrine. However, the alkaloid isolated by us was shown to be a mixture of two rotational isomers. The X-ray crystallographic analysis of 1 has shown that two rotamers are incorporated in a single crystal in 1:1 ratio. The complex NMR spectrum of 1 has also been defined as a mixture of two rotamers by extensive use of 2D (COSY and COLOC) techniques. Dehatrine has been shown to significantly inhibit the growth of cultured Plasmodium falciparum K1 strain (cholorquine resistant) with similar activity to quinine.

Alkaloids↗

Vasoactive hormones and autocrine activation of capillary exchange barrier function.

Capillary barrier function is subject to changes in Starling forces via hemodynamic status (hydrostatic pressure) or protein milieu of fluids bathing the wall (oncotic pressure). Venular function is sensitive to inflammatory mediators leading to white cell sticking, fluid and formed element extravasation, and flow disruption. Thus, we hypothesized that vasoactive hormones and autocrines alter preferentially the venular-capillary (VC) barrier. Hydraulic conductivity (Lp) of frog mesenteric venular- and true-capillaries (TC) was measured by the modified-Landis technique under control (LpC), then during atrial natriuretic peptide (ANP, 10(-7) to 10(-8) M), bradykinin (BKN, 10(-7) M), acetylcholine (ACh, 10(-6) to 10(-5) M), angiotensin II (AII, 10(-7) M), or norepinephrine (NE, 10(-6) M) perfusion. All agents, except AII or NE, elevated Lp: LpANP/LpC = 2.9 +/- 0.3 (mean +/- SEM; (n = 55), LpBKN/LpC = 3.3 +/- 0.8 (n = 16), LpACh/LpC = 1.6 +/- 0.1 (n = 26), LpAII/LpC = 1.1 +/- 0.2 (n = 8), and LpNE/LpC = 1.1 +/- 0.2 (n = 9). Contrary to our hypothesis, VC and TC responded similarly: 3.0 versus 2.9 for ANP, 3.4 versus 3.2 for BKN, and 1.6 versus 1.6 for ACh, respectively. These data are consistent with putative vasodilators lowering capillary barrier resistance independent from changes in Starling forces.

Acetylcholine↗

Control of capillary hydraulic conductivity via membrane potential-dependent changes in Ca2+ influx.

Capillary permeability has been shown to be sensitive to the levels of intracellular calcium. We examined the role of membrane potential in the regulation of capillary water permeability by a Ca2+ leak mechanism. Repeated measures of Lp were taken in situ on individually perfused mesenteric capillaries of cerebrally pithed frogs (Rana pipiens). A rise in extracellular potassium ([K+]o) to 24 mM induced a 45% decrease in Lp (n = 20), whereas lowering [K+]o to 0.24 mM elevated Lp by twofold (n = 9). To investigate whether these changes in Lp were due specifically to changes in membrane potential and consequent changes in the driving force for Ca2+ influx, we performed the following experiments: 1) [K+]o was elevated while the product of [K+]o and extracellular chloride concentration [Cl-]o was kept constant, 2) [K+]o was elevated under nominally Ca(2+)-free conditions, 3) K+ leak was induced by addition of 10 microM valinomycin, and 4) Na(+)-K+ pump was blocked by 10 microM ouabain. A constant [K+]o [Cl-]o product did not prevent high K+ from lowering Lp. Nominally Ca(2+)-free conditions abolished the effect of high K+. Valinomycin mimicked the response to low K+, and ouabain failed to change Lp. The data from this study conform to the hypothesis that membrane potential is an important regulator of capillary barrier properties via changes in Ca2+ influx through leak channels.

Animals↗

Indonesian medicinal plants. I. Chemical structures of calotroposides A and B, two new oxypregnane-oligoglycosides from the root of Calotropis gigantea (Asclepiadaceae).

Two new oxypregnane-oligoglycosides named calotroposides A (1) and B (2) have been isolated from the root of Calotropis gigantea (Asclepiadaceae), an Indonesian medicinal plant, and their chemical structures have been elucidated by chemical and spectroscopic methods as 12-O-benzoyllineolon 3-O-beta-D-cymaropyranosyl(1----4)-beta-D-oleandropyranosyl( 1----4)- beta-D-oleandropyranosyl(1----4)-beta-D-cymaropyranosyl(1--- -4)-beta-D- cymaropyranoside and 12-O-benzoyldeacetylmetaplexigenin 3-O-beta-D-cymaropyranosyl(1---4)-beta-D-oleandropyranosyl(- ---4)- beta-D-oleandropyranosyl(1----4)-beta-D-cymaropyranosyl(1--- -4)- beta-D-cymaropyranoside, respectively.

Parasympathomimetics↗

[A clinical study on allicin in the prevention of thrush in newborn infants].

This article deals with the 0.06/1000 allicin and 2.5% sodium bicarbonate in order to look for effective drugs in preventing thrush. The results revealed: (1) The incidence of the disease of the two drugs in the less dangerous group was significantly decreased compared with that of the control (P less than 0.01); (2) In the more dangerous group, the incidence of the disease of the allium group was more significantly decreased than that of the control, but no significant decrease in sodium bicarbonate was observed. The two drugs are both effective in preventing thrush and the allium is more effective.

Administration, Buccal↗

Quantitative prediction of liquid chromatography retention of N-benzylideneanilines based on quantum chemical parameters and radial basis function neural network.

Based on quantum chemical parameters and a simple numerical coding, the liquid chromatography retention of bifunctionally substituted N-benzylideneaniles (NBA) has been predicted using a radial basis function neural network (RBFNN) model. The quantum chemical parameters involved in the model are dipole moment (m), energies of the highest occupied and lowest unoccupied molecular orbitals (E(homo,) E(lumo)), net charge of the most negative atom (Q(min)), sum of absolute values of the charges of all atoms in two given functional groups (Delta), total energy of the molecule (E(T)), weight of the molecule (W), and numerical coding (N). N was used to indicate the different positions of two substituents. The predictive values are consistent with the experimental results. The mean relative error of the testing set is 1.6%, and the maximum relative error is less than 5.0%. In this work the success of the whole modeling process only depends on the optimization of the spread parameter in network.

Journal Article↗

Diagnosing breast cancer based on support vector machines.

The Support Vector Machine (SVM) classification algorithm, recently developed from the machine learning community, was used to diagnose breast cancer. At the same time, the SVM was compared to several machine learning techniques currently used in this field. The classification task involves predicting the state of diseases, using data obtained from the UCI machine learning repository. SVM outperformed k-means cluster and two artificial neural networks on the whole. It can be concluded that nine samples could be mislabeled from the comparison of several machine learning techniques.

Algorithms↗

QSAR study of ethyl 2-[(3-methyl-2,5-dioxo(3-pyrrolinyl))amino]-4-(trifluoromethyl) pyrimidine-5-carboxylate: an inhibitor of AP-1 and NF-kappa B mediated gene expression based on support vector machines.

The support vector machine, as a novel type of learning machine, for the first time, was used to develop a QSAR model of 57 analogues of ethyl 2-[(3-methyl-2,5-dioxo(3-pyrrolinyl))amino]-4-(trifluoromethyl)pyrimidine-5-carboxylate (EPC), an inhibitor of AP-1 and NF-kappa B mediated gene expression, based on calculated quantum chemical parameters. The quantum chemical parameters involved in the model are Kier and Hall index (order3) (KHI3), Information content (order 0) (IC0), YZ Shadow (YZS) and Max partial charge for an N atom (MaxPCN), Min partial charge for an N atom (MinPCN). The mean relative error of the training set, the validation set, and the testing set is 1.35%, 1.52%, and 2.23%, respectively, and the maximum relative error is less than 5.00%.

Carboxylic Acids↗