Computational Identification of Chemical Compounds with Potential Activity against Leishmania amazonensis using Nonlinear Machine Learning Techniques

Author(s): Juan Alberto Castillo-Garit*, Naivi Flores-Balmaseda, Orlando Álvarez, Hai Pham-The, Virginia Pérez-Doñate, Francisco Torrens, Facundo Pérez-Giménez.

Journal Name: Current Topics in Medicinal Chemistry

Volume 18 , Issue 27 , 2018

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Abstract:

Leishmaniasis is a poverty-related disease endemic in 98 countries worldwide, with morbidity and mortality increasing daily. All currently used first-line and second-line drugs for the treatment of leishmaniasis exhibit several drawbacks including toxicity, high costs and route of administration. Consequently, the development of new treatments for leishmaniasis is a priority in the field of neglected tropical diseases. The aim of this work is to develop computational models those allow the identification of new chemical compounds with potential anti-leishmanial activity. A data set of 116 organic chemicals, assayed against promastigotes of Leishmania amazonensis, is used to develop the theoretical models. The cutoff value to consider a compound as active one was IC50≤1.5μM. For this study, we employed Dragon software to calculate the molecular descriptors and WEKA to obtain machine learning (ML) models. All ML models showed accuracy values between 82% and 91%, for the training set. The models developed with k-nearest neighbors and classification trees showed sensitivity values of 97% and 100%, respectively; while the models developed with artificial neural networks and support vector machine showed specificity values of 94% and 92%, respectively. In order to validate our models, an external test-set was evaluated with good behavior for all models. A virtual screening was performed and 156 compounds were identified as potential anti-leishmanial by all the ML models. This investigation highlights the merits of ML-based techniques as an alternative to other more traditional methods to find new chemical compounds with anti-leishmanial activity.

Keywords: Anti-leishmanial activity, Chemical compound, L. amazonensis, ML-based model, Virtual screening, WEKA.

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Article Details

VOLUME: 18
ISSUE: 27
Year: 2018
Page: [2347 - 2354]
Pages: 8
DOI: 10.2174/1568026619666181130121558
Price: $58

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