MicroRNAEngine

miRNA Target Prediction and Regulatory Network Analysis

A pure-Python pipeline for miRNA seed sequence matching, target anti-correlation, and regulatory network construction.

Features

• Seed sequence matching (6mer/7mer/8mer at positions 2-8)
• Target site accessibility (local MFE approximation)
• miRNA-target anti-correlation (Pearson r < -0.3, FDR < 0.05)
• miRNA regulatory network (miRNA → target gene → pathway)
• Differential miRNA expression (NB model)

Results

• 100 samples × 500 miRNAs + 5000 target genes
• DE miRNAs (FDR<0.05, |log2FC|>1): 69
• Anti-correlated pairs: 4,320
• Seed matches: 6mer=24,766, 7mer=15,031, 8mer=10,142
• Max hub degree: 181

Usage

pip install numpy scipy matplotlib
python microrna_engine.py

Tags

mirna small-rna mirna-target seed-sequence ago2 noncoding-rna