Chemogenomic Active Learning's Domain of Applicability on Small, Sparse qHTS Matrices: A Study Using Cytochrome P450 and Nuclear Hormone Receptor Families. (5th February 2018)

• Record Type: Journal Article
• Authors: Rakers, Christin; Najnin, Rifat Ara; Polash, Ahsan Habib; Takeda, Shunichi; Brown, J.B.
• Is Part Of: ChemMedChem. Volume 13:Number 6(2018)
• Page Start: 511
• Page End: 521
• Publication Date: 2018-02-05
• Subjects: active learning -- chemogenomics -- chemoinformatics -- cytochromes -- hormone receptors; Pharmaceutical chemistry -- Periodicals; 615.19005
• DOI: 10.1002/cmdc.201700677
• Languages: English
• ISSNs: 1860-7179

Abstract

Abstract: Computational models for predicting the activity of small molecules against targets are now routinely developed and used in academia and industry, partially due to public bioactivity databases. While models based on bigger datasets are the trend, recent studies such as chemogenomic active learning have shown that only a fraction of data is needed for effective models in many cases. In this article, the chemogenomic active learning method is discussed and used to newly analyze public databases containing nuclear hormone receptor and cytochrome P450 enzyme family bioactivity. In addition to existing results on kinases and G‐protein coupled receptors, results here demonstrate the active learning methodology's effectiveness on extracting informative ligand–target pairs in sparse data scenarios. Experiments to assess the domain of the applicability demonstrate the influence of ligand profiles of similar targets within the family. Abstract : Learning for big data : Chemogenomic active learning represents an alternative to current strategies of dumping large‐scale databases into "black box" machine learning by automatically leveraging a reduced number of informative, retraceable ligand–target pairs. Recent reports have shown its efficiency on big datasets, and herein we complementarily assess its prediction performance in sparse data scenarios and applicability to de‐orphanization tasks.