Study on the Quantitative Structure-toxicity Relationships for the Selected Esters by Using Molecular Electronegativity Interaction Vector (MEIV)

The molecular electronegativity interaction vector （MEIV） was used to describe the molecular structure of 30 selected esters. Two excellent QSTR models were built up by using multiple linear regression （MLR） and partial least-squares regression （PLS）. The correlation coefficients （R） of the two models were 0.945 and 0.941, respectively. The models were evaluated by performing the cross validation with the leave-one-out （LOO） procedure. The cross-verification correlation coefficients （RCV） of the two models were 0.921 and 0.919, respectively. The results showed that the models constructed in this work could provide estimation stability and favorable predictive ability.

A Quantitative Structure Property Relationship for Prediction of Flash Point of Alkanes Using Molecular Connectivity Indices

Many structure-property/activity studies use graph theoretical indices, which are based on the topological properties of a molecule viewed as a graph. Since topological indices can be derived directly from the molecular structure without any experimental effort, they provide a simple and straightforward method for property prediction. In this work the flash point of alkanes was modeled by a set of molecular connectivity indices （Х）, modified molecular connectivity indices （ ^mХ^v ） and valance molecular connectivity indices （ ^mХ^v ）, with ^mХ^v calculated using the hydrogen perturbation. A stepwise Multiple Linear Regression （MLR） method was used to select the best indices. The predicted flash points are in good agreement with the experimental data, with the average absolute deviation 4.3 K.

Relationship of quantitative structure and pharmacokinetics in fluoroquinolone antibacterials

AIM： To study the relationship between quantitative structure and pharmacokinetics （QSPkR） of fluorocluinolone antibacterials.METHODS： The pharmacokinetic （PK） parameters of oral fluoroquinolones were collected from the literature. These pharmacokinetic data were averaged, 19 compounds were used as the training set, and 3 served as the test set. Genetic function approximation （GFA） module of Cerius2 software was used in QSPkR analysis.RESULTS： A small volume and large polarizability and surface area of substituents at C-7 contribute to a large area under the curve （AUC） for fluoroquinolones. Large polarizability and small volume of substituents at N-1 contribute to a long half life elimination.CONCLUSION： QSPkR models can contribute to some fluoroquinolones antibacterials with excellent pharmacokinetic properties.

Quantitative structure－activity study on the reductive dehalogenation potency of the halogenated aromatics

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Heterogeneous Fenton degradation of azodyes catalyzed by modified polyacrylonitrile fiber Fe complexes: QSPR (quantitative structure peorperty relationship) study

The amidoximated polyacrylonitrile （PAN） fiber Fe complexeswere prepared and used as the heterogeneous Fenton catalysts for thedegradation of28 anionicwater soluble azodyes inwater under visible irradiation. The multiple linear regression （MLR） methodwas employed todevelop the quantitative structure property relationship （QSPR） model equations for thedecoloration and mineralization of azodyes. Moreover, the predictive ability of the QSPR model equationswas assessed using Leave-one-out （LOO） and cross-validation （CV） methods. Additionally, the effect of Fe content of catalyst and the sodium chloride inwater on QSPR model equationswere also investigated. The results indicated that the heterogeneous photo-Fentondegradation of the azodyeswithdifferent structureswas conducted in the presence of the amidoximated PAN fiber Fe complex. The QSPR model equations for thedyedecoloration and mineralizationwere successfullydeveloped using MLR technique. MW/S （molecularweightdivided by the number of sulphonate groups） and N N=N （the number of azo linkage） are considered as the most importantdetermining factor for thedyedegradation and mineralization, and there is a significant negative correlation between MW/S or N N=N anddegradation percentage or total organic carbon （TOC） removal. Moreover, LOO and CV analysis suggested that the obtained QSPR model equations have the better prediction ability. The variation in Fe content of catalyst and the addition of sodium chloridedid not alter the nature of the QSPR model equations.

Establishing quantitative structure tribo-ability relationship model using Bayesian regularization neural network

Quantitative structure-activity relationship methods are used to study the quantitative structure tribo-ability relationship (QSTR), which refers to the tribology capability of a compound from the calculation of structure descriptors. Here, we used the Bayesian regularization neural network (BRNN) to establish a QSTR prediction model. Two-dimensional (2D) BRNN-QSTR models can flexibly and easily estimate lubricant-additive antiwear properties. Our results show that electron transfer and heteroatoms (such as S, P, O, and N) in a lubricant-additive molecule improve the antiwear ability. We also found that molecular connectivity indices are good descriptors of 2D BRNN-QSTR models.

Predicting Chromatographic Retention Time of C10-Chlorinated Paraffins in Gas Chromatography-Mass Spectrometry Using Quantitative Structure Retention Relationship

Chlorinated paraffins（CPs） are potential persistent organic pollutants（POPs）, which threat the safety of environment and organisms. However, the analysis of CPs is a difficult task due to their complex composition containing thousands of congeners. In the present work, quantitative structure retention relationship（QSRR） of CPs was studied. A total of 470 molecular descriptors were generated, for describing the structures of 28 CPs and 12 descriptors relevant to retention time of the CPs were selected by stepwise regression. Then, QSRR models between retention time on the one hand and the selected descriptors on the other hand were established by multiple linear regres- sion（MLR）, partial least squares（PLS） and least square support vector regression（LS-SVR）. The result shows that PLS model is better than MLR and LS-SVR, obtaining a squared correlation coefficient（r2） of 0.9996 and a root mean squared error（RMSE） of 0.015. The PLS model was then used to predict the retention time of 49 C10-CPs. Three of them were investigated by gas chromatography coupled with mass spectrometry（GC-MS）. A well-defined correlation was found between the measured retention time and the predicted value.

Effects of local neighbourhood diversity on crown structure and productivity of individual trees in mature mixed-species forests

Background:Species-specific genotypic features,local neighbourhood interactions and resource supply strongly influence the tree stature and growth rate.In mixed-species forests,diversity-mediated biomass allocation has been suggested to be a fundamental mechanism underlying the positive biodiversity-productivity relationships.Empirical evidence,however,is rare about the impact of local neighbourhood diversity on tree characteristics analysed at a very high level of detail.To address this issue we analysed these effects on the individual-tree crown architecture and tree productivity in a mature mixed forest in northern Germany.Methods:Our analysis considers multiple target tree species across a local neighbourhood species richness gradient ranging from 1 to 4.We applied terrestrial laser scanning to quantify a large number of individual mature trees(N=920)at very high accuracy.We evaluated two different neighbour inclusion approaches by analysing both a fixed radius selection procedure and a selection based on overlapping crowns.Results and conclusions:We show that local neighbourhood species diversity significantly increases crown dimension and wood volume of target trees.Moreover,we found a size-dependency of diversity effects on tree productivity(basal area and wood volume increment)with positive effects for large-sized trees(diameter at breast height(DBH)>40 cm)and negative effects for small-sized(DBH<40 cm)trees.In our analysis,the neighbour inclusion approach has a significant impact on the outcome.For scientific studies and the validation of growth models we recommend a neighbour selection by overlapping crowns,because this seems to be the relevant scale at which local neighbourhood interactions occur.Because local neighbourhood diversity promotes individual-tree productivity in mature European mixed-species forests,we conclude that a small-scale species mixture should be considered in management plans.

Non-invasive determination of hepatic steatosis by acoustic structure quantification from ultrasound echo amplitude

AIM:To use leptin-deficient(ob/ob) mice with demonstrated differences in steatosis levels to test a new diagnostic method using the acoustical structure quantification(ASQ) mode and the associated analytical parameter,"focal disturbance ratio"(FD-ratio).METHODS:Nine ob/ob mice,at 5,8,and 12 wk of age(n = 3 in each age group),were used as models for hepatic steatosis.Echo signals obtained from ultrasonography in the mice were analyzed by ASQ,which uses a statistical analysis of echo amplitude to estimate inhomogeneity in the diagnostic region.FD-ratio,as calculated from this analysis,was the focus of the present study.FD-ratio and fat droplet areas and sizes were compared between age groups.RESULTS:No fibrosis or inflammation was observed in any of the groups.The fat droplet area significantly(P < 0.01) increased with age from 1.25% ± 0.28% at 5 wk to 31.07% ± 0.48% at 8 wk to 51.69% ± 3.19% at 12 wk.The median fat droplet size also significantly(P < 0.01) increased with age,from 1.33(0.55-10.52) m at 5 wk,2.82(0.61-44.13) m at 8 wk and 6.34(0.66-81.83) m at 12 wk.The mean FD-ratio was 0.42 ± 0.11 at 5 wk,0.11 ± 0.05 at 8 wk,and 0.03 ± 0.02 at 12 wk.The FD-ratio was significantly lower at 12 wk than at 5 wk and 8 wk(P < 0.01).A significant negative correlation was observed between the FD-ratio and either the fat droplet area(r =-0.7211,P = 0.0017) or fat droplet size(r =-0.9811,P = 0.0052).CONCLUSION:This tool for statistical analysis of signals from ultrasonography using the FD-ratio can be used to accurately quantify fat in vivo in an animal model of hepatic steatosis,and may serve as a quantitative biomarker of hepatic steatosis.

Distribution and quantitative zonation of unloading cracks at a proposed large hydropower station dam Site

Rock mass unloading is an important rock engineering problem because unloading may impact the stability of a rock mass slope. Based on hydroelectric engineering principles, this study focuses on the classification of unloading zones to reflect the rock mass structure characteristics. Geological background and slope structure of the study region were considered to investigate the distribution and deformation of the unloading process. Quantitative indices were classified according to the formation mechanisms and the geological exhibition of unloading zones. The P-wave velocity(V_P), the ratio of the wave velocity(V_p) the ratio of the test P-wave velocity along the adit depth to the P-wave velocity of intact rock, the sum of joint openings every 2 meters(S_t), and the density of open joints(D_t) were calculated as quantitative indices for the rock mass unloading zone. The characteristics of the unloading zone of rock mass slopes at the dam site were successfully determined. The method of combining qualitative data with quantitative indices was found to be effective for the classification of slope unloading zones.

On QSAR Study of Stereoselectivity for Wittig Reaction

Molecular structures of reactants were characterized by molecular electronegativity distance vector （VHMED） considering hydrogen association. A reasonable molecular modeling equation with 4-parameters was achieved for quantitative structure-property/activity relationship （QSPR/QSAR） by stepwise multiple regression （SMR） that the variable was introduced item by item in significant level order. A high correlation coefficient （R = 0.980） demonstrates that the model is able to well express a quantitative relation between stereoselectivity and the reactant structures as quantitative structure-reactivity/stereoselectivity relationship （QSRR/QSSR）. The multiple correlation coefficient （Rcv= 0.964） was tested through cross-validation with the leave-one-out （LOO） procedure. The above results show that the model possesses high estimation stability and good prediction ability between the amount of both cis and trans isomers in products and reactants.

Application of TLSER method in predicting the aqueous solubility and n-octanol/water partition coefficient of PCBs,PCDDs and PCDFs

The theoretical linear solvation energy relationship(TLSER) approach was adopted to predict the aqueous solubility and n -octanol/water partition coefficient of three groups of environmentally important chemicals-polychlorinated biphenyls(PCBs), polychlorinated dibenzodioxins and dibenzofurans(PCDDs and PCDFs). For each compound, five quantum parameters were calculated using AM1 semiempirical molecular orbital methods and used as structure descriptors: average molecular polarizability(α), energy of the lowest unoccupied molecular orbit( E _ LUMO ), energy of the highest occupied molecular orbit( E _ HOMO ), the most positive charge on a hydrogen atom( q _+), and the most negative atomic partial charge( q _-) in the solute molecule. Then standard independent variables in TLSER equation was extracted and two series of quantitative equations between these quantum parameters and aqueous solubility and n -octanol/water partition coefficient were obtained by stepwise multiple linear regression(MLR) method. The developed equations have both quite high accuracy and explicit meanings. And the cross-validation test illustrated the good predictive power and stability of the established models. The results showed that TLSER could be used as a promising approach in the estimation of partition and solubility properties of macromolecular chemicals, such as persistent organic pollutants.

Molecular Modeling and Design of Arylthioindole Derivatives as Tubulin Inhibitors

Three-dimensional quantitative structure activity relationship （3D-QSAR） and docking studies of a series of arylthioindole derivatives as tubulin inhibitors against human breast cancer cell line MCF-7 have been carried out. An optimal 3D-QSAR model from the comparative molecular field analysis （CoMFA） for training set with significant statistical quality （R2=0.898） and predictive ability （q2=0.654） was established. The same model was further applied to predict pIC50 values of the compounds in test set, and the resulting predictive correlation coefficient R2（pred） reaches 0.816, further showing that this CoMFA model has high predictive ability. Moreover, the appropriate binding orientations and conformations of these compounds interacting with tubulin are located by docking study, and it is very interesting to find the consistency between the CoMFA field distribution and the 3D topology structure of active site of tubulin. Based on CoMFA along with docking results, some important factors improving the activities of these compounds were discussed in detail and were summarized as follows： the substituents R3-R5 （on the phenyl ring） with higher electronegativity, the substituent R6 with higher eleetropositivity and bigger bulk, the substituent R7 with smaller bulk, and so on. In addition, five new compounds with higher activities have been designed. Such results can offer useful theoretical references for experimental works.

QSRR Study on the Components of Styrax Japonicus Sieb Flowers Using Improved Molecular Electronegativity-distance Vector (I-MEDV)

Atoms in most organic molecules are often carbon,oxygen,nitrogen,sulfur,halogens,etc. Based on the three-dimensional structure of a molecule,a molecular structural characterization（MSC） method called improved molecular electronegativity-distance vector（I-MEDV） was developed. It was used to describe the structures of 37 compounds of styrax japonicus sieb flowers. Through multiple linear regression（MLR）,a QSRR model was built up. The correlation coefficient（R1） of the model was 0.980. Then,4 vectors were selected to build another model through the method of stepwise multiple regression（SMR） ,and the correlation coefficient（R2） of the model was 0.975. Moreover,all the two models were evaluated by performing the crossvalidation with the leave-one-out（LOO） procedure and the correlation coefficients（Rcv） were 0.948 and 0.968,respectively. The results show that the I-MEDV could successfully describe the structures of organic compounds. The stability and predictability of the models were good.

Structural features of substituted triazole-linked chalcone derivatives as antimalarial activities against D_(10) strains of Plasmodium falciparum: A QSAR approach

A quantitative structure–activity relationship(QSAR) was performed to analyze antimalarial activities against the D10 strains of Plasmodium falciparum of triazole-linked chalcone and dienone hybrid derivatives using partial least squares regression coupled with stepwise forward–backward variable selection method. QSAR analyses were performed on the available IC50 D10 strains of Plasmodium falciparum data based on theoretical molecular descriptors. The QSAR model developed gave good predictive correlation coefficient(r2) of 0.8994, significant cross validated correlation coefficient(q2) of 0.7689, r2 for external test set)(2predr of 0.8256, coefficient of correlation of predicted data set)(2sepred,r of 0.3276. The model shows that antimalarial activity is greatly affected by donor and electron-withdrawing substituents. The study implicates that chalcone and dienone rings should have strong donor and electron-withdrawing substituents as they increase the activity of chalcone. Results show that the predictive ability of the model is satisfactory, and it can be used for designing similar group of antimalarial compounds. The findings derived from this analysis along with other molecular modeling studies will be helpful in designing of the new potent antimalarial activity of clinical utility.

Prediction of Molar Absorptivities of Color Reagents and Their Color Reactions with Yttrium by Artificial Neural Networks

The new topological indices A x1 A x3 suggested in our laboratories were applied to the study of structure property relationships between color reagents and their color reactions with yttrium. The topological indices of twenty asymmetrical phosphone bisazo derivatives of chromotropic acid were calculated. The work shows that QSPR can be used as a novel aid to predict the molar absorptivities of color reactions and in the long term to be helpful tool in color reagent design. Multiple regression analysis and neural network were employed simultaneously in this study. The results demonstrated the feasibility and the effectiveness of the method.

Prediction of liquid chromatography retention factors for α-branched phenylsulfonyl acetates using quantum chemical descriptors

The logarithms of retention factors normalized to a hypothetical pure water eluent(log k w) were determined on a reversed phase high performance liquid chromatography(RP HPLC) column (Li Chrosorb RP 18 column) for 20 new α\|branched phenylsulfonyl acetates. The atomic charge method was applied to develop quantitative structure retention relationships(QSRRs). Among the available geometric and electronic descriptors, surface area (S), ovality (O), and the charge of carboxyl group(Q OC ) are significant. In the model, the contribution of surface area (S) is the greatest. The molecular mechanism of retention was demonstrated through the model. With the correlation coefficient ( r 2 adj , adjusted for degrees of freedom) of 0.964, the standard error of 0.164 and the F value of 170.39, the model has good predictive capacity.

Comparative Study of Variable Selection Using Genetic Algorithm with Various Types of Chromosomes

In this study,different methods of variable selection using the multilinear step-wise regression（MLR） and support vector regression（SVR） have been compared when the performance of genetic algorithms（GAs） using various types of chromosomes is used.The first method is a GA with binary chromosome（GA-BC） and the other is a GA with a fixed-length character chromosome（GA-FCC）.The overall prediction accuracy for the training set by means of 7-fold cross-validation was tested.All the regression models were evaluated by the test set.The poor prediction for the test set illustrates that the forward stepwise regression（FSR） model is easier to overfit for the training set.The results using SVR methods showed that the over-fitting could be overcome.Further,the over-fitting would be easier for the GA-BC-SVR method because too many variables fleetly induced into the model.The final optimal model was obtained with good predictive ability（R2 = 0.885,S = 0.469,Rcv2 = 0.700,Scv = 0.757,Rex2 = 0.692,Sex = 0.675） using GA-FCC-SVR method.Our investigation indicates the variable selection method using GA-FCC is the most appropriate for MLR and SVR methods.

Structural Characterization and Toxicity Prediction of Some Organic Compounds

A new molecular structural characterization（MSC）method called molecular vertexes correlative index（MVCI）was constructed in this paper.The index was used to describe the structures of 45 compounds and a quantitative structure-activity relationship（QSAR）model of toxicity（–lgEC50）was obtained through multiple linear regression（MLR）and stepwise multiple regression（SMR）.The correlation coefficient（R）of the model was 0.912,and the standard deviation（SD）of the model was 0.525.The estimation stability and prediction ability of the model were strictly analyzed by both internal and external validations.The Leave-One-Out（LOO）Cross-Validation（CV）correlation coefficient（RCV）was 0.816 and the standard deviation（SDCV）was 0.739,respectively.For the external validation,the correlation coefficient（Rtest）was 0.905 and the standard deviation（SDtest）was 0.520,respectively.The results showed that the index was superior in molecular structural representation.The stability and predictability of the model were good.

In Silico Investigation of Agonist Activity of a Structurally Diverse Set of Drugs to hPXR Using HM-BSM and HM-PNN

The human pregnane X receptor（hPXR） plays a critical role in the metabolism, transport and clearance of xenobiotics in the liver and intestine. The hPXR can be activated by a structurally diverse of drugs to initiate clinically relevant drug-drug interactions. In this article, in silico investigation was performed on a structurally diverse set of drugs to identify critical structural features greatly related to their agonist activity towards h PXR. Heuristic method（HM）-Best Subset Modeling（BSM） and HM-Polynomial Neural Networks（PNN） were utilized to develop the linear and non-linear quantitative structure-activity relationship models. The applicability domain（AD） of the models was assessed by Williams plot. Statistically reliable models with good predictive power and explain were achieved（for HM-BSM, r^2=0.881, q^2_（LOO）=0.797, q^2_（EXT）=0.674; for HM-PNN, r^2=0.882, q^2_（LOO）=0.856, q^2_（EXT）=0.655）. The developed models indicated that molecular aromatic and electric property, molecular weight and complexity may govern agonist activity of a structurally diverse set of drugs to h PXR.