TFmiR2

TFmiR2 constructs integrated transcription factor (TF) and microRNA (miRNA) co-regulatory networks for human and mouse and analyzes them to identify key driver genes and key driver miRNAs and to detect four-node TF-miRNA motifs relevant to tissue- and process-specific regulation.

Key Features:

• Network construction: Builds integrated TF and miRNA co-regulatory networks for human and mouse.
• Tissue- and process-specific networks: Generates tissue-specific and biological process-specific networks using user-provided sets of deregulated genes and miRNAs.
• Key driver identification: Identifies "key driver genes" and "key driver miRNAs" using a graph theoretical minimum connected dominating set.
• Motif detection: Detects four-node TF-miRNA motifs representing specific interaction patterns between transcription factors and microRNAs.

Scientific Applications:

• Disease pathogenesis: Analysis of regulatory interactions underlying disease pathogenesis.
• Tissue-specific regulation: Investigation of tissue-specific regulatory mechanisms.
• Biological process analysis: Dissection of regulatory mechanisms in specific biological processes.

Methodology:

Constructs co-regulatory networks from user-provided deregulated genes and miRNAs to produce tissue- and biological process-specific networks; applies the minimum connected dominating set to identify key driver genes and key driver miRNAs; searches networks for four-node TF-miRNA motifs.