Dario Greco

3D-Printable and Cytocompatible Hydrogel from Acinetobacter baylyi ADP1 Extracellular Matrix

This paper develops a 3D-printable, cytocompatible hydrogel from Acinetobacter baylyi ADP1 extracellular matrix, demonstrating its versatility for biofabrication.

Integrating Semantic Retrieval, LLM-based Refinement, and Structured Expert Curation for Scalable AOP Gene Mapping

The paper presents an AI workflow for mapping Key Events to genes in Adverse Outcome Pathways, improving accuracy and reducing manual effort through semantic retrieval, LLM refinement, and expert curation.

MUUMI: an R package for statistical and network-based meta-analysis for MUlti-omics data Integration

MUUMI integrates multi-omics data using statistical meta-analysis and network-based methods to identify robust molecular signatures and interactomes.

OpTiles: An R Package for Adaptive Tiling and Methylation Variability Profiling

OpTiles dynamically defines tiling windows for methylation data based on CpG distribution and variability, improving reliability and annotation of targeted methylation datasets.

Curated and harmonised transcriptomics datasets of interstitial lung diseases

This paper curates and harmonizes transcriptomics datasets from interstitial lung disease patients to improve data FAIRness and enable integrated systems biology approaches.

Multi-omic triangulation identifies molecular candidates of atopic dermatitis severity

This study identifies 440 genes/proteins associated with atopic dermatitis severity through multi-omics analyses and highlights four with significant cross-evidence, including CEP85, which may contribute to severity via impaired phagocytosis.

Endothelial Sensitivity to Pro-Fibrotic Signals Links Systemic exposure to Pulmonary Fibrosis

This study shows that endothelial cells are sensitive to systemic pro-fibrotic signals and initiate early pro-fibrotic mechanisms in pulmonary fibrosis, independent of other cell types.

Toxicogenomic Assessment of In Vitro Macrophages Exposed to Profibrotic Challenge.

This study uses RNA sequencing to analyze immune gene responses in macrophages exposed to bleomycin, identifying dose-dependent gene alterations and linking them to cytokine and proteinase activity.

Methylation and Transcriptomic Profiling Reveals Short Term and Long Term Regulatory Responses in Polarized Macrophages

This study investigates how polarizing environments affect macrophage gene expression and DNA methylation, revealing long-term regulatory responses and common epigenetic changes across stimuli.

A Multi-Dimensional Approach to Map Disease Relationships Challenges Classical Disease Views

This paper maps disease relationships using six data dimensions to reveal novel insights beyond traditional classifications, identifying shared features between Type 2 diabetes and Alzheimer's disease.

The integration of large-scale public data and network analysis uncovers molecular characteristics of psoriasis

This study integrates public transcriptomic data with network analysis to identify molecular features of psoriasis, revealing key genes and networks involved in the disease.

Clustering based approach for population level identification of condition-associated T-cell receptor β-chain CDR3 sequences

The paper introduces a clustering-based method to identify condition-associated TCR CDR3 sequences by comparing immune repertoires across populations.

eUTOPIA: Solution for omics data preprocessing and analysis

eUTOPIA provides an intuitive R Shiny application for preprocessing and analyzing microarray data without requiring computational expertise.