TF network prediction

TF regulatory network prediction

Overview

This analysis takes the results from MARA and uses them to construct a dynamical model of how TFs/miRNAs affect each others' activities. The output takes the form of predictions of how pairs of TFs/miRNAs interact, and can be visualised as a network.

Technical description

The algorithm steps through a timecourse and looks for constant, reproducible relationships between the predicted activities of TFs at successive timepoints.

Relationships between the activities which are present throughout the timecourse (non-transient interactions) will be highest-scored, and the confidence of predictions will increase with increasing timecourse length and with more replicates. Relationships which are approximately linear on the sampling timescale are detected best.

Application

This analysis will be applied to all FANTOM5 timecourses shortly. The resulting network picture will be added to each timecourse's page, and the predicted interactions between pairs of TFs will be made available.

Presentation

For more detailed information, please see the following teleconference presentation: File:Presentation Peter PR.pdf

Contact

If you need any help, guidance or custom analyses, please get in touch!

Peter Pemberton-Ross, Universität Basel, Switzerland

peter.pemberton-ross@unibas.ch