Julio Augusto Freyre-González

The paper evaluates gene regulatory network inference methods by analyzing the impact of network structure and data quality on performance, finding that regulatory interaction methods outperform co-expression methods in global inference.

The paper curates and infers a gene regulatory network for Streptomyces coelicolor, identifying novel transcription factors and comparing network conservation with Corynebacterium glutamicum.

The paper introduces a method to quantify noise in clustered biological data using autocorrelation.

This study constructs three regulatory network models for Corynebacterium glutamicum, incorporating experimental data, non-directed experiments, and small RNA-mediated regulations, revealing structural differences and insights into its regulatory system.

Abasy Atlas v2.2 provides a comprehensive inventory of bacterial regulatory networks, their completeness, and historical snapshots to enable cross-organism analysis and improve network curation.

The paper estimates the total number of genetic interactions in prokaryotic GRNs by analyzing structural properties and resolving controversies about network randomness and completeness.