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. 2012 Aug 14:1:11.
doi: 10.12688/f1000research.1-11.v1. eCollection 2012.

Freely available compound data sets and software tools for chemoinformatics and computational medicinal chemistry applications

Affiliations

Freely available compound data sets and software tools for chemoinformatics and computational medicinal chemistry applications

Ye Hu et al. F1000Res. .

Abstract

We have generated a number of compound data sets and programs for different types of applications in pharmaceutical research. These data sets and programs were originally designed for our research projects and are made publicly available. Without consulting original literature sources, it is difficult to understand specific features of data sets and software tools, basic ideas underlying their design, and applicability domains. Currently, 30 different entries are available for download from our website. In this data article, we provide an overview of the data and tools we make available and designate the areas of research for which they should be useful. For selected data sets and methods/programs, detailed descriptions are given. This article should help interested readers to select data and tools for specific computational investigations.

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Conflict of interest statement

Competing interests: No competing interests declared.

References

    1. Wang Y, Xiao J, Suzek TO, et al. : PubChem: a public information system for analyzing bioactivities of small molecules. Nucleic Acids Res. 2009;37(Web Server issue):W623–W633 10.1093/nar/gkp456 - DOI - PMC - PubMed
    1. Liu T, Lin Y, Wen X, et al. : BindingDB: A Web-accessible database of experimentally determined protein−ligand binding affinities. Nucleic Acids Res. 2007;35(Database issue):D198–D201 10.1093/nar/gkl999 - DOI - PMC - PubMed
    1. Gaulton A, Bellis LJ, Bento AP, et al. : ChEMBL: A large-scale bioactivity database for drug discovery. Nucleic Acids Res. 2012;40(Database issue):D1100–D1107 10.1093/nar/gkr777 - DOI - PMC - PubMed
    1. Irwin JJ, Sterling T, Mysinger MM, et al. : ZINC: A free tool to discover chemistry for biology. J Chem Inf Model. 2012;52(7):1757–1768 10.1021/ci3001277 - DOI - PMC - PubMed
    1. Weininger D: SMILES, a chemical language and information system. 1. Introduction to methodology and encoding rules. J Chem Inf Comput Sci. 1988;28(1):31–36 10.1021/ci00057a005 - DOI

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