Find 10 master regulators in networks (TRANSPATH(R)) (workflow)

Workflow title

Find 10 master regulators in networks (TRANSPATH(R))

Provider

geneXplain GmbH

Workflow overview

Description

Variant of the workflow:

Visualization of top 10 master regular networks, instead of 3 in our "standard" workflows

This workflow is designed to find master regulatory molecules upstream of an input list of genes. Input file is any gene or protein table.

 At the first step, the input table is converted into a table with TRANSPATH® peptides.

This table is subjected to master regulator search in the TRANSPATH® network. For each potential master regulator, FDR, Score, and Z-score are calculated.

The results are filtered by Z_Score>1 and Score>0.2 to select statistically significant master regulators.

Further, the filtered regulatory molecules are converted to both Ensembl Gene IDs and a list of UniProt protein IDs.

The table with Ensembl Gene Ids is annotated with additional information, gene description and gene symbols.

Finally, the table with master regulatory molecules is sorted by Score and networks for the three top master regulators are visualized as diagrams in the hierarchical layout.

This workflow is available together with a valid TRANSPATH® license.

Parameters

Input gene set

Species

Max steps

Select max number of steps upstream

Results folder