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Identifying the biological pathways that are related to various clinical phenotypes is an important concern in biomedical research. Based on estimated expression levels and/or p values, overrepresentation analysis (ORA) methods provide rankings of pathways, but they are tainted because pathways overlap. This crosstalk phenomenon has not been rigorously studied and classical ORA does not take into...
Many analysis techniques are currently available to identify the signaling pathways significantly impacted in a given condition. All these approaches calculate a p-value that aims to quantify the significance of the involvement of a given pathway in the condition under study. These p-values were thought to be related to the likelihood of their respective pathways being involved in the given condition,...
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