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Substructure Search with MoSS

Substructure SearchMoSSChemistryLife sciences
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Apr 15, 2025 7:15 AM
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This flow demonstrates the functionality of the MoSS node. It takes a a bunch of molecules (ideally grouped into a least two classes, e.g. active an inactive) and searches for substructures (fragments) that occur frequently in the "active" molecules and infrequently in the "inactive" molecules.

The two Interactive Tables show the hiliting feature: Hiliting one (or several) found fragments hilites the molecules containint the fragments in the other table.
The MolConverter nodes are used to generate 2D coordinates for the molecules and fragments in order to get 2D depictions in the table view.

The dataset used in this example workflow was taken from PubChem (http://pubchem.ncbi.nlm.nih.gov/).

External resources

  • Dataset from PubChem
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Used extensions & nodes

Created with KNIME Analytics Platform version 4.1.2
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    ChemAxon/Infocom Marvin Extensions FeatureTrusted extension

    Infocom Corporation

    Version 4.0.0

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    KNIME Base Chemistry Types & NodesTrusted extension

    KNIME AG, Zurich, Switzerland

    Version 4.1.1

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    knime
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    KNIME Chemistry Add-OnsTrusted extension

    KNIME AG, Zurich, Switzerland

    Version 4.1.0

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    knime
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    KNIME CoreTrusted extension

    KNIME AG, Zurich, Switzerland

    Version 4.1.2

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