Franco L. Simonetti

PyTorch Frustratometer: An Ultra-fast, Parallelized Tool for Proteome-Scale Local Energetic Frustration Analysis

The paper introduces a PyTorch-based tool for fast proteome-scale local frustration analysis, achieving 70-13,000x speedup over the original FrustratometeR.

FrustrAI-Seq: Scaling Local Energetic Frustration to the Protein Sequence Space

A fine-tuned ProtT5 protein language model predicts per-residue energetic frustration from sequence (Pearson r 0.86 on unseen CATH topologies) and profiles the human proteome in ~17 minutes on one GPU.

DisPhaseDB, an integrative database of diseases related variations in liquid-liquid phase separation proteins

DisPhaseDB integrates disease-related variants of LLPS proteins and MLO-associated proteins across 10 databases, providing a comprehensive resource for analysis and further research.

Reverse regression increases power for detecting trans-eQTLs

The paper introduces Tejaas, a method for detecting trans-eQTLs by reverse regression, identifying 18851 unique trans-eQTLs across 49 tissues and showing enrichment in regulatory regions.