CORAL: the prediction of biodegradation of organic compounds with optimal SMILES-based descriptors

• Authors: Andrey Toropov , Alla Toropova , Anna Lombardo , Alessandra Roncaglioni , Nicoletta Brita , Giovanni Stella , Emilio Benfenati
• Languages of publication: EN

Abstracts

EN

CORAL software (http:/www.insilico.eu/coral) has been used to build up quantitative structure-biodegradation relationships (QSPR). The normalized degradation percentage has been used as the measure of biodegradation (for diverse organic compounds, n=445). Six random splits into sub-training, calibration, and test sets were examined. For each split the QSPR one-variable linear regression model based on the SMILES-based optimal descriptors has been built up. The average values of numbers of compounds and the correlation coefficients (r2) between experimental and calculated biodegradability values of these six models for the test sets are n=88.2±11.7 and r2=0.728±0.05. These six models were further tested against a set of chemicals (n=285) for which only categorical values (biodegradable or not) were available. Thus we also evaluated the use of the model as a classifier. The average values of the sensitivity, specificity, and accuracy were 0.811±0.019, 0.795±0.024, and 0.803±0.008, respectively. [...]

Keywords

EN

QSPR; SMILES; Biodegradability; CORAL software

• Publisher: De Gruyter Open
• Journal: Open Chemistry
• Year: 2012
• Volume: 10
• Issue: 4
• Pages: 1042-1048

Dates

published

1 - 8 - 2012

online

29 - 5 - 2012

Contributors

author

Andrey Toropov

• Mario Negri Institute for Pharmacological Research, 20156, Milan, Italy

author

Alla Toropova

• Mario Negri Institute for Pharmacological Research, 20156, Milan, Italy

author

Anna Lombardo

• Mario Negri Institute for Pharmacological Research, 20156, Milan, Italy

author

Alessandra Roncaglioni

• Mario Negri Institute for Pharmacological Research, 20156, Milan, Italy

author

Nicoletta Brita

• Technico-Scientific Center, 20052, Monza, Italy

author

Giovanni Stella

• Technico-Scientific Center, 20052, Monza, Italy

author

Emilio Benfenati

• Mario Negri Institute for Pharmacological Research, 20156, Milan, Italy

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Identifiers

DOI

10.2478/s11532-012-0031-4