molBLOCKS: decomposing small molecule sets and uncovering enriched fragments

Abstract

UNLABELLED The chemical structures of biomolecules, whether naturally occurring or synthetic, are composed of functionally important building blocks. Given a set of small molecules-for example, those known to bind a particular protein-computationally decomposing them into chemically meaningful fragments can help elucidate their functional properties, and may be useful for designing novel compounds with similar properties. Here we introduce molBLOCKS, a suite of programs for breaking down sets of small molecules into fragments according to a predefined set of chemical rules, clustering the resulting fragments, and uncovering statistically enriched fragments. Among other applications, our software should be a great aid in large-scale chemical analysis of ligands binding specific targets of interest. AVAILABILITY AND IMPLEMENTATION molBLOCKS is available as GPL C++ source code at http://compbio.cs.princeton.edu/molblocks.

DOI: 10.1093/bioinformatics/btu173

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Cite this paper

@inproceedings{Ghersi2014molBLOCKSDS, title={molBLOCKS: decomposing small molecule sets and uncovering enriched fragments}, author={Dario Ghersi and Mona Singh}, booktitle={Bioinformatics}, year={2014} }