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ChemicalToolBoX and its application on the study of the drug like and purchasable space

The ever increasing amount of data and computational capabilities in the cheminformatics field has led to a scenario where efficient techniques for storage and processing in an integrated, modular, and easily accessible platform are in vital demand. Here, we present ChemicalToolBoX, a compilation of more than 30 tools integrated into a single computational chemistry and cheminformatics platform based on the Galaxy workflow management system [1, 2]. We have recently designed a workflow within the ChemicalToolBoX to generate a library of compounds containing around 70 million unique commercially available small molecules, i.e. the purchasable space [3]. Subsequently, we have used filtering rules based on structural patterns and chemical alarms to discard problematic molecules, representing a very large portion of the drug-like and purchasable space, along with other drug discovery data sets including more than 2 million fragments (Figure 1). Furthermore, we have computed several physicochemical descriptors to discover general trends applying to each subset.

figure1

Figure 1

References

  1. 1.

    [https://github.com/bgruening/galaxytools/tree/master/chemicaltoolbox]

  2. 2.

    Grüning BA, et al: submitted

  3. 3.

    Lucas X, et al: manuscript in preparation

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Correspondence to Xavier Lucas.

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Lucas, X., Grüning, B.A. & Günther, S. ChemicalToolBoX and its application on the study of the drug like and purchasable space. J Cheminform 6, P51 (2014). https://doi.org/10.1186/1758-2946-6-S1-P51

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Keywords

  • Small Molecule
  • General Trend
  • Drug Discovery
  • Efficient Technique
  • Structural Pattern