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A web tool for the interpretation of the consequences of the combined changes in expression levels of genes in the context of signaling pathways. Specifically, this tool allows the user to identify the stimulus-response subpathways that are significantly activated or deactivated in the typical case/control experiment. PATHiWAYS identifies all the stimulus-response subpathways of KEGG signaling pathways, calculates the probability of activation of each one, based on the individual gene expression values and identifies those with a significant differential activity between the two conditions compared.

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PATHiWAYS classification

  • Animals
    • Homo sapiens
    • Mus musculus

PATHiWAYS specifications

Web user interface
Input data:
Gene expression
Programming languages:
Java, Javascript
Computer skills:
Restrictions to use:
Output data:
Pathway activity
GNU General Public License version 2.0


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Computational Genomics Department, CIPF, Valencia, Spain

Link to literature

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