Zolboo Erdenebaatar

METANet predicts direct, functional TF targets across human tissues by integrating motif, cis-regulatory, and expression features, outperforming existing methods.

CIDER detects gene regulatory network changes associated with continuous traits by modeling interactions between transcription factors and target genes, outperforming two-group methods in simulations and identifying trait-dependent regulatory relationships in human transcriptomes.

The paper shows that functional synergy between transcription factors explains why most TF binding does not affect gene expression, and highlights the need for more expressive regulatory network models.