Robust cross-validation of linear regression QSAR models

A quantitative structure-activity relationship (QSAR) model is typically developed to predict the biochemical activity of untested compounds from the compounds' molecular structures. "The gold standard" of model validation is the blindfold prediction when the model's predictive power is assessed from how well the model predicts the activity values of compounds that were not considered in any way during the model development/calibration. However, during the development of a QSAR model, it is necessary to obtain some indication of the model's predictive power. This is often done by some form of cross-validation (CV). In this study, the concepts of the predictive power and fitting ability of a multiple linear regression (MLR) QSAR model were examined in the CV context allowing for the presence of outliers. Commonly used predictive power and fitting ability statistics were assessed via Monte Carlo cross-validation when applied to percent human intestinal absorption, blood-brain partition coefficient, and toxicity values of saxitoxin QSAR data sets, as well as three known benchmark data sets with known outlier contamination. It was found that (1) a robust version of MLR should always be preferred over the ordinary-least-squares MLR, regardless of the degree of outlier contamination and that (2) the model's predictive power should only be assessed via robust statistics. The Matlab and java source code used in this study is freely available from the QSAR-BENCH section of www.dmitrykonovalov.org for academic use. The Web site also contains the java-based QSAR-BENCH program, which could be run online via java's Web Start technology (supporting Windows, Mac OSX, Linux/Unix) to reproduce most of the reported results or apply the reported procedures to other data sets.     

Evaluation of polymeric methacrylate-based monoliths in capillary electrochromatography for their potential to separate pharmaceutical compounds

Polymeric methacrylate-based monoliths are evaluated in capillary electrochromatography (CEC) and pressurized capillary electrochromatography (p-CEC) for their potential in pharmaceutical analysis. Using a given polymerization mixture as a basis for the monolith synthesis, different mobile phase pH at constant organic modifier concentrations are tested in both CEC and p-CEC. The test set consists of basic, acidic, amphoteric, and neutral compounds, which are mainly pharmaceuticals. Because of the mainly hydrophobic character of the stationary phase, the interactions are largest when the compounds appear in an uncharged state, but some ion-exchange phenomena with negatively charged compounds can also be observed. In CEC, acidic substances are most retained at low pH. For amphoteric and neutral compounds, no preference regarding analyzing pH can be derived from these experiments. For basics, a high pH is chosen, but a reduced solvent strength is needed to enhance the retention of these compounds. The retention mechanism in p-CEC can also be assigned to both hydrophobic and ionic interactions. For acidic, amphoteric, and neutral compounds, acceptable retention is seen. For the basic compounds, the retention with a mobile phase containing 50% organic modifier is low, as in CEC. However, when the organic modifier content in the mobile phase is decreased, retention increases and the selectivity of the stationary phase is more pronounced. This mode of operation presents a possibility for separating some test mixtures, thus some potential for pharmaceutical analysis is seen. More efforts are needed to obtain higher efficiencies and better peak shapes, which might be solved by a further optimization of both the stationary phase synthesis and the mobile phase composition.     

Ruggedness and robustness testing

Due to the strict regulatory requirements, especially in pharmaceutical analysis, analysis results with an acceptable quality should be reported. Thus, a proper validation of the measurement method is required. In this context, ruggedness and robustness testing becomes increasingly more important. In this review, the definitions of ruggedness and robustness are given, followed by a short explanation of the different approaches applied to examine the ruggedness or the robustness of an analytical method. Then, case studies, describing ruggedness or robustness tests of high-performance liquid chromatographic (HPLC), capillary electrophoretic (CE), gas chromatographic (GC), supercritical fluid chromatographic (SFC), and ultra-performance liquid chromatographic (UPLC) assay methods, are critically reviewed and discussed. Mainly publications of the last 10 years are considered.     

A nearly optimal preconditioning based on recursive red–black orderings

Considering matrices obtained by the application of a five-point stencil on a 2D rectangular grid, we analyse a preconditioning method introduced by Axelsson and Eijkhout, and by Brand and Heinemann. In this method, one performs a (modified) incomplete factorization with respect to a so-called ‘repeated’ or ‘recursive’ red–black ordering of the unknowns while fill-in is accepted provided that the red unknowns in a same level remain uncoupled. Considering discrete second order elliptic PDEs with isotropic coefficients, we show that the condition number is bounded by 𝒪(n ${}^{\text{½ log}{}_{\text{2}}\text{(√(5) −1)}}$ ) where n is the total number of unknowns (½ log₂(√(5) − 1) = 0.153), and thus, that the total arithmetic work for the solution is bounded by 𝒪(n^1.077). Our condition number estimate, which turns out to be better than standard 𝒪(log² n) estimates for any realistic problem size, is purely algebraic and holds in the presence of Neumann boundary conditions and/or discontinuities in the PDE coefficients. Numerical tests are reported, displaying the efficiency of the method and the relevance of our analysis. © 1997 John Wiley & Sons, Ltd.     

Screening approach for chiral separation of pharmaceuticals IV. Polar organic solvent chromatography

The aim of this work is to determine generic screening conditions and an initial simple separation strategy allowing the rapid separation of drug enantiomers in polar organic solvent chromatography (POSC). Four cellulose/amylose-based stationary phases were investigated in detail using two mobile phase basis solvents commonly applied in this mode, i.e. acetonitrile and methanol. Polar mode is interesting for use in purification of enantiomers. In a first step, the parameters potentially influencing the separation, such as addition of an alcohol to the polar organic solvent or the type of mobile phase additive(s), were examined by means of experimental designs. Afterwards, the factors found most important are investigated in more detail. Results showed that the cellulose- and amylose-based stationary phases have very broad and complementary enantiorecognition abilities in the POSC mode. The type of organic solvent for the mobile phase appeared to have a dramatic influence on the quality of the separation. Based on the results, a screening strategy was proposed. Enantioseparation was observed in more than 85% of the tested compounds and analysis times of last eluted peak were usually below 10 min.     

Precision study on capillary electrophoresis methods for metacycline

A CE method for metacycline (MTC) determination was investigated in an inter-laboratory experiment. Many problems were encountered in this study, most of which were related to the transfer of the method to different CE equipment. The reported problems could be classified into different categories: problems related to the precision, to the parameters in the protocol, and to the MTC peak shape. As the peak shape problem was partially responsible for the poor precision, a new CE method was developed in order to obtain a good MTC peak shape on all equipment. The precision of this new method for MTC determination was examined in an intermediate precision study, where the influence of the factors "time" and "equipment" was investigated. Although the new method could be transferred to different instruments, the precision remained poor mainly due to the contributions of the between-replicate and the between-injection variances.     

AES chemunex ADIAFOOD detection system for Listeria spp. environmental sample testing

The ADIAFOOD Detection System for the detection of Listeria species from environmental surfaces is based on real-time PCR technology and allows rapid pathogen detection within 21 h. The strength of the ADIAFOOD technology resides in its ability to rapidly and accurately detect Listeria species present on surfaces, such as stainless steel, plastic, ceramic, and sealed concrete. The technology is easy to use and versatile.     

Charge transport and contact resistance in coplanar devices based on colloidal polyaniline dispersion

The charge transport properties of thin films prepared from colloidal dispersion of polyaniline stabilized by poly(N‐vinylpyrrolidone) (PANI/PVP) have been investigated. The electrical characterization of coplanar device comprising of gold electrodes and PANI/PVP film deposited by spin coating served to gain insights into the contact and bulk resistance. The films prepared from PANI/PVP colloidal dispersion show high stability over a large temperature range. Temperature dependent measurements in the range from 90 to 350 K reveal that the charge transport can be described by a three‐dimensional variable‐range hopping mechanism as the dominant mode in the films. The stability of the films cast from dispersion within a large temperature range opens the possibility of the application as a polymer semiconductor layer in sensors and charge‐transport interlayer in organic solar cells. © 2016 Wiley Periodicals, Inc. J. Polym. Sci., Part B: Polym. Phys. 2016 , 54, 1710–1716     

Organometallic Derivatives of Cycloproparenes

The tricarbonylchromium complex of cyclopropa[b]naphthalene ( 3a ) is deprotonated at C(1) with BuLi. Quenching of the resulting anion with Mel results in a 1:1 mixture of stereoisomeric methyl derivatives 6a and 6b . Peterson olefination of the bis-silylated complex 3b affords the complexed alkylidenecycloproparene 5 in low yield. The tricarbonylchromium complex of cyclopropa[b]anthracene ( 10 ) is accessible via bis-hydro-desilylation of 9 . Its X-ray structure is also reported. All attempts to synthesize a tricarbonylchromium complex of benzocyclopropene ( 11a ) failed.