CLEVER: pipeline for designing in silico chemical libraries.
Advances in virtual screening have created new channels for expediting the process of discovering novel drugs. Of particular relevance and interest are in silico techniques that enable the enumeration of combinatorial chemical libraries, generation of 3D coordinates and assessment of their propensity for drug-likeness. In a bid to provide an integrated pipeline that encompasses the common components functional for designing, managing and analyzing combinatorial chemical libraries, we describe a platform-independent, standalone Java application entitled CLEVER (Chemical Library Editing, Visualizing and Enumerating Resource). CLEVER supports chemical library creation and manipulation, combinatorial chemical library enumeration using user-specified chemical components, chemical format conversion and visualization, as well as chemical compounds analysis and filtration with respect to drug-likeness, lead-likeness and fragment-likeness based on the physicochemical properties computed from the derived molecules. Also provided is an integrated property-based graphing component that visually depicts the diversity, coverage and distribution of selected compound collections. When deployed in conjunction with large-scale virtual screening campaigns, CLEVER can offer insights into what chemical compounds to synthesize, and more importantly, what not to synthesize. The software is available at http://datam.i2r.a-star.edu.sg/clever/.
Song
Chun Meng
CM
Data Mining Department, Institute for Infocomm Research, 1 Fusionopolis Way, #21-01 Connexis, Singapore, Singapore.
Bernardo
Paul H
PH
Chai
Christina L L
CL
Tong
Joo Chuan
JC
D000465:Algorithms; D020650:Combinatorial Chemistry Techniques / Q000295:instrumentation / Q000379:methods; D003196:Computer Graphics; D015195:Drug Design; D007214:Indonesia; D015394:Molecular Structure; D054852:Small Molecule Libraries; D012984:Software; D012985:Software Design; D013329:Structure-Activity Relationship; D013678:Technology, Pharmaceutical / Q000295:instrumentation / Q000379:methods; D014584:User-Computer Interface
D054852:Small Molecule Libraries