Biomedical subjects

A P Worth

Publications and source records attributed to A P Worth.

15 recordsLinked to original sources

PubMed2006

Prediction of estrogenicity: validation of a classification model.

(Q)SAR models can be used to reduce animal testing as well as to minimise the testing costs. In particular, classification models have been widely used for estimating endpoints with binary activity. The aim of the present study was to develop and validate a classification-based quantitative structure-activity relationship (QSAR) model for endocrine disruption, based on interpretable mechanistic descriptors related to estrogenic gene activation. The model predicts the presence or absence of estrogenic activity according to a pre-defined cut-off in activity as determined in a recombinant yeast assay. The experimental data was obtained from the literature. A two-descriptor classification model was developed that has the form of a decision tree. The predictivity of the model was evaluated by using an external test set and by taking into account the limitations associated with the applicability domain (AD) of the model. The AD was determined as coverage of the model descriptor space. After removing the compounds present in the training set and the compounds outside of the AD, the overall accuracy of classification of the test chemicals was used to assess the predictivity of the model. In addition, the model was shown to meet the OECD Principles for (Q)SAR Validation, making it potentially useful for regulatory purposes.

1-Octanol↗

PubMed2006

Validation of a QSAR model for acute toxicity.

In the present study, a quantitative structure--activity relationship (QSAR) model has been developed for predicting acute toxicity to the fathead minnow (Pimephales promelas), the aim being to demonstrate how statistical validation and domain definition are both required to establish model validity and to provide reliable predictions. A dataset of 408 heterogeneous chemicals was modelled by a diverse set of theoretical molecular descriptors by using multivariate linear regression (MLR) and Genetic Algorithm-Variable Subset Selection (GA-VSS). This QSAR model was developed to generate reliable predictions of toxicity for organic chemicals not yet tested, so particular emphasis was given to statistical validity and applicability domain. External validation was performed by using OECD Screening Information Data Set (SIDS) data for 177 High Production Volume (HPV) chemicals, and a good predictivity was obtained (=72.1). The model was evaluated according to the OECD principles for QSAR validation, and compliance with all five principles was established. The model could therefore be useful for the regulatory assessment of chemicals. For example, it could be used to fill data gaps within its chemical domain and contribute to the prioritization of chemicals for aquatic toxicity testing.

Animals↗

PubMed2004

QSARS for toxicity to the bacterium Sinorhizobium meliloti.

In the present study, structure-activity relationship (QSAR) models for the prediction of the toxicity to the bacterium Sinorhizobium meliloti have been developed, based on a data set of 140 compounds. The data set is highly heterogeneous both in terms of chemistry and mechanisms of toxic action. For deriving QSARs, chemicals were divided into groups according to mechanism of action and chemical structure. The QSARs derived are considered to be of moderate statistical quality. A baseline effect (relationship between the toxicity and logP), which can be related to non-polar narcosis, was observed. To explain toxicity greater than the baseline toxicity, other structural descriptors were used. The development of models for non-polar and polar narcosis had some success. It appeared that the toxicity of compounds acting by more specific mechanisms of toxic action is difficult to predict. A global QSAR was also developed, which had square of the correlation coefficient r2 = 0.53. A QSAR with reasonable statistical parameters was developed for the aliphatic compounds in the data set (r2 = 0.83). QSARs could not be obtained for the aromatic compounds as a group.

Forecasting↗

PubMed2002

The importance of hydrophobicity and electrophilicity descriptors in mechanistically-based QSARs for toxicological endpoints.

Quantitative structure-activity relationship (QSAR) analysis of four toxicological data sets is described. The toxicological data include three data sets retrieved from the literature (the toxic and metabolic effects of 23 aliphatic alcohols on the perfused rat liver; the toxicity of 21 pyridines to mice; the lethality of 55 halogenated hydrocarbons to the mould Aspergillus nidulans). In addition, the toxicity of 13 mono- and di-substituted nitrobenzenes in a 15 min assay using the alga Chlorella vulgaris was analysed. QSARs were developed successfully using descriptors to describe uptake in the organism (i.e. hydrophobicity as quantified by the logarithm of the octanol-water partition coefficient, log P) and reactivity at the site of action (i.e. electrophilicity as quantified by the energy of the lowest unoccupied molecular orbital, E(LUMO)). A further parameter describing molecular branching as also required to model the data for the aliphatic alcohols. The results demonstrate that mechanistically based QSARs can be developed for these diverse endpoints which are, in terms of statistical quality as good as, if not better, than QSARs based on less mechanistically interpretable descriptors.

Animals↗

PubMed2001

The use of pH measurements to predict the potential of chemicals to cause acute dermal and ocular toxicity.

Regulatory guidelines for the assessment of acute dermal and ocular toxicity refer to the need to take the pH values of chemicals into consideration, since the acidic and basic properties of chemicals are known to play a role in the generation of acute dermal and ocular lesions. However, not all test guidelines provide an objective interpreting pH measurements in terms of acute skin or eye toxicity. The aim of this study was to develop classification models based on pH data for predicting the potential of chemicals to cause skin corrosion, skin irritation and eye irritation. The possible application of these models in the context of tiered testing strategies is discussed.

Chemical Phenomena↗

PubMed2001

Establishment of an in vitro reporter gene assay for developmental cardiac toxicity.

This study is based on the unique potential of pluripotent embryonic stem (ES) cells to differentiate in vitro into embryoid bodies containing cell lineages representative of most cell types found in the mammalian fetus. However, the use of wild type ES cells as an in vitro assay for embryotoxicological studies is complicated by the simultaneous development of various cellular phenotypes. This prevents a quantitative assessment of drug effects on one specific cell type. Here we report the effects of 15 chemicals on cardiac differentiation as determined by various specific toxicological endpoints such as morphological inspection (contractile activity), quantitative mRNA analysis and cardiac-specific expression of green fluorescent protein (GFP), used as a quantitative reporter. The data from the different endpoints have been subjected to a statistical analysis, and a preliminary prediction model is proposed. The results demonstrate that genetically-engineered ES cells could provide a valuable tool for estimating the developmental cardiotoxic potential of compounds in vitro and form the basis for automated analysis in a high-throughput system.

Animals↗

PubMed2001

Prediction models for eye irritation potential based on endpoints of the HETCAM and neutral red uptake tests.

The aim of this study was to explore the possibility of distinguishing between eye irritants (I; EU risk phrases R36 and R41) and nonirritants (NI), by using in vitro endpoints of the hen's egg test on the chorioallantoic membrane (the HETCAM test) and the neutral red uptake (NRU) test. Prediction models were derived by applying binary logistic regression to the in vitro data for these endpoints, which were taken from the report of a German validation study on the use of the HETCAM and 3T3 NRU tests as alternatives to the Draize eye irritation test. Whereas the validation study led to the conclusion that the combined use of the two tests enables a satisfactory discrimination between severe (R41) and nonsevere (NI, R36) eye irritants, the results of the present study indicate that the two in vitro tests can also be used to discriminate between nonirritants (NI) and irritants (R36 and R41).

3T3 Cells↗

PubMedDate not supplied

Improving the application of quantitative methods in validation work.

The acceptance of quantitative methods in in vitro studies has seen a steady increase over the last 5 years. ECVAM's Biostatistics Task Force report in the mid-1990s (Holzhütter, H.-G., Archer, G., Dami, N., Lovall, D.P., Saltelli, A., Sjöström, M., 1996. Recommendations for the application of biostatistical methods during the development and validation of alternative toxicological methods. ECVAM Biostatistics Task Force Report 1. ATLA 24, 511-530) laid out clear guidelines for biologists in this field. Nevertheless, the application of more formal approaches to experimental design and statistics is still far from complete in many studies. Furthermore, the regulatory paradigm often does not encourage the use of standard statistical techniques; for example, lowest detectable concentration levels in assays are defined in international guidelines as a simple multiple of standard deviation, rather than tests which are accepted in the statistical field as more reliable and more powerful. ECVAM is currently defining a new approach to facilitate the improved acceptance of these methods into the development and validation process. This will cover a review of appropriate quantitative approaches that can be applied in the validation of alternative methods, as well as an educational element for the community as a whole. This paper will discuss some issues of concern, and outline the milestones planned to help facilitate the acceptance of quantitative methods.

Animal Testing Alternatives↗

PubMedDate not supplied

The role of the European centre for the validation of alternative methods (ECVAM) in the validation of (Q)SARs.

Under the current chemicals legislation, the regulatory use of structure-activity relationships (SARs) and quantitative structure-activity relationships (QSARs), collectively referred to as (Q)SARs, for the assessment of chemicals is limited, partly due to concerns about the extent to which (Q)SAR estimates can be relied upon. On 29 October 2003, the European Commission adopted a legislative proposal that foresees the introduction of a new regulatory system for chemicals called REACH (Registration, Evaluation, and Authorisation of Chemicals), which will impose equivalent information requirements on both new and existing chemicals. For reasons of practicality, cost-effectiveness and animal welfare, it is envisaged that (Q)SARs will play an important role in the assessment of some 30,000 existing chemicals for which further information may be required under the REACH system. It will therefore be essential that the (Q)SAR models used will produce reliable estimates. To overcome the barriers in the acceptance of (Q)SARs for regulatory purposes, it is widely acknowledged that there needs to be international agreement on the principles of (Q)SAR validation, and that the process of (Q)SAR validation should be managed by independent organisations, with a view to providing independent advice to the regulators who make decisions on the acceptability of (Q)SARs. The European Centre for the Validation of Alternative Methods (ECVAM), which is part of the European Commission's Joint Research Centre (JRC), has a well-established role in providing independent scientific and technical advice to European policy makers. This paper describes progress made at an international level regarding the principles of validation, and explains the role of ECVAM regarding the practical validation of (Q)SARs.

Animal Testing Alternatives↗

PubMedDate not supplied

The prospects for using (Q)SARs in a changing political environment--high expectations and a key role for the European Commission's joint research centre.

Recent policy developments in the European union (EU) and within the Organisation for Economic Cooperation and Development (OECD) have placed increased emphasis on the use of structure-activity relationships (SARs) and quantitative structure-activity relationships (QSARs), collectively referred to as (Q)SARs, within various regulatory programmes for the assessment of chemicals and products. The most significant example within the EU is the European commission's proposal (of 29 October 2003) to introduce a new system for managing chemicals (called REACH), which calls for an increased use of (Q)SARs and other non-animal methods, especially for the assessment of low production volume chemicals. Another development within the EU is the Seventh Amendment to the Cosmetics Directive, which foresees the phasing out of animal testing on cosmetics, combined with the imposition of marketing bans on cosmetics that have been tested on animals after certain deadlines. At the same time, the Existing Chemicals programme within the OECD is investigating ways of increasing the use of chemical category approaches, which depend heavily on the use of (Q)SARs, activity-activity relationships and read-across. Such developments are placing an enormous challenge on industry, regulatory bodies, and on the European commission's Joint Research Centre (JRC), which is responsible for providing independent scientific advice to policy makers in the European Commission and the Member States. This paper reviews the different scientific and regulatory purposes for which reliable (Q)SARs could be used, and describes the current work of the JRC in providing scientific support for the development, validation and implementation of (Q)SARs.

Animal Experimentation↗

PubMedDate not supplied

3D QSAR investigation of the blood-brain barrier penetration of chemical compounds.

In the present study, we investigated structure-permeability relationships for the blood-brain barrier (BBB) of 16 imipramine and phenothiazine derivatives. The compounds belong to structurally related chemical classes of catamphiphiles, representatives of which have previously been investigated for membrane activity and ability to overcome multidrug resistance (MDR) in tumour cells. These studies show that phenothiazines and structurally related drugs (imipramines, thioxanthenes, acridines) interact with membrane phospholipids, and additionally inhibit the MDR transport P-glycoprotein. This study aimed to identify common 3D structural characteristics of these compounds related to their mechanism of transport across the BBB. For this purpose Genetic Algorithm Similarity Programme (GASP), Comparative Molecular Field Analysis (CoMFA) and Comparative Molecular Similarity Index Analysis (CoMSIA) were applied. The results demonstrate the importance of the spatial distribution of molecular hydrophobicity for the BBB penetration of the investigated compounds. It suggests that the compounds should follow a specific profile of two hydrophobic and one hydrophilic centres in a particular space configuration, for optimal BBB penetration.

Blood-Brain Barrier↗

PubMedDate not supplied

The importance of the prediction model in the validation of alternative tests.

An overview is presented of the validation process adopted by the European Centre for the Validation of Alternative Methods, with particular emphasis on the central role of the prediction model (PM). The development of an adequate PM is considered to be just as important as the development of an adequate test system, since the validity of an alternative test can only be established when both components (the test system and the PM) have successfully undergone validation. It is argued, however, that alternative tests and their associated PMs do not necessarily need to undergo validation at the same time, and that retrospective validation may be appropriate when a test system is found to be reliable, but the case for its relevance remains to be demonstrated. For an alternative test to be considered "scientifically valid", it is necessary for three conditions to be fulfilled, referred to here as the criteria for scientific relevance, predictive relevance, and reliability. A minimal set of criteria for the acceptance of any PM is defined, but it should be noted that required levels of predictive ability need to be established on a case-by-case basis, taking into account the inherent variability of the alternative and in vivo test data. Finally, in view of the growing shift in emphasis from the use of stand-alone alternative tests to alternative testing strategies, the importance of making the PM an integral part of the testing strategy is discussed.

Animal Testing Alternatives↗

PubMedDate not supplied

The use of bootstrap resampling to assess the uncertainty of cooper statistics.

The predictive abilities of two-group classification models (CMs) are often expressed in terms of their Cooper statistics. These statistics are often reported without any indication of their uncertainty, making it impossible to judge whether the predicted classifications are significantly better than the predictions made by a different CM, or whether the predictive performance of the CM exceeds predefined performance criteria in a statistically significant way. Bootstrap resampling routines are reported that provide a means of expressing the uncertainty associated with Cooper statistics. The usefulness of the bootstrapping routines is illustrated by constructing 95% confidence intervals for the Cooper statistics of four alternative skin-corrosivity tests (the rat skin transcutaneous electrical resistance assay, EPISKIN, Skin(2) and CORROSITEX), and four two-step sequences in which each in vitro test is used in combination with a physicochemical test for skin corrosion based on pH measurements.

Animal Testing Alternatives↗

PubMedDate not supplied

The use of bootstrap resampling to assess the variability of Draize tissue scores.

The acute dermal and ocular effects of chemicals are generally assessed by performing the Draize skin and eye tests, respectively. Because the animal data obtained in these tests are also used for the development and validation of alternative methods for skin and eye irritation, it is important to assess the inherent variability of the animal data, since this variability places an upper limit on the predictive performance that can be expected of any alternative model. The statistical method of bootstrap resampling was used to estimate the variability arising from the use of different animals and time-points, and the estimates of variability were used to determine the maximal extent to which Draize test tissue scores can be predicted.

Animal Testing Alternatives↗

PubMedDate not supplied

The role of ECVAM in promoting the regulatory acceptance of alternative methods in the European Union. European Centre for the Validation of Alternative Methods.

The roles played by the European Centre for the Validation of Alternative Methods (ECVAM) and its advisory committee, the ECVAM Scientific Advisory Committee (ESAC), in the evolution of alternative methods are described. Particular emphasis is given to the process by which ECVAM and the ESAC assess the scientific validities of alternative methods, and, in appropriate cases, initiate the progression of scientifically validated methods toward regulatory acceptance.

Animal Testing Alternatives↗