Send to

Choose Destination
See comment in PubMed Commons below
Molecules. 2009 Apr 29;14(5):1660-701. doi: 10.3390/molecules14051660.

On two novel parameters for validation of predictive QSAR models.

Author information

Department of Pharmaceutical Technology, Division of Medicinal and Pharmaceutical Chemistry, Drug Theoretics and Cheminformatics Lab, Jadavpur University, Kolkata, India.


Validation is a crucial aspect of quantitative structure-activity relationship (QSAR) modeling. The present paper shows that traditionally used validation parameters (leave-one-out Q(2) for internal validation and predictive R(2) for external validation) may be supplemented with two novel parameters r(m)(2) and R(p)(2) for a stricter test of validation. The parameter r(m)(2)((overall)) penalizes a model for large differences between observed and predicted values of the compounds of the whole set (considering both training and test sets) while the parameter R(p)(2) penalizes model R(2) for large differences between determination coefficient of nonrandom model and square of mean correlation coefficient of random models in case of a randomization test. Two other variants of r(m)(2) parameter, r(m)(2)((LOO)) and r(m)(2)((test)), penalize a model more strictly than Q(2) and R(2)(pred) respectively. Three different data sets of moderate to large size have been used to develop multiple models in order to indicate the suitability of the novel parameters in QSAR studies. The results show that in many cases the developed models could satisfy the requirements of conventional parameters (Q(2) and R(2)(pred)) but fail to achieve the required values for the novel parameters r(m)(2) and R(p)(2). Moreover, these parameters also help in identifying the best models from among a set of comparable models. Thus, a test for these two parameters is suggested to be a more stringent requirement than the traditional validation parameters to decide acceptability of a predictive QSAR model, especially when a regulatory decision is involved.

[Indexed for MEDLINE]
Free full text
PubMed Commons home

PubMed Commons

How to join PubMed Commons

    Supplemental Content

    Full text links

    Icon for Multidisciplinary Digital Publishing Institute (MDPI)
    Loading ...
    Support Center