Rubén Molina-Fernández

ModCRElib is a package for modeling cis-regulatory elements, offering tools for TF-DNA interaction analysis, binding motif prediction, and regulatory complex modeling.

The paper identifies a 127-gene core network in human astrocytes linking aging to neurodegenerative and cardiovascular diseases through proteostasis and stress signaling.

The paper introduces a structure-based learning approach to predict TF binding preferences and model TF regulatory complexes, demonstrating its effectiveness over existing methods in cases of remote homology.

This paper identifies amino acid changes and genes associated with longevity across mammals, showing their potential to improve human lifespan heritability interpretation.

RADI improves the computational efficiency of direct-coupling analysis by reducing the alphabet size, achieving faster execution with comparable or better accuracy than traditional methods.

The paper develops a computational method to predict DNA-binding preferences of C2H2-ZF domains using structural models and applies it to predict CTCF's binding sites.

The paper introduces PepI-Covid19, a database of peptides targeting SARS-CoV-2 RBD-ACE2 interaction, designed using PiPreD method to preserve key interactions.