Federico Manuel Giorgi

Progressive oxygenation of developing leaves directs morphogenesis

This study shows that oxygen gradients in developing leaves guide morphogenesis by regulating cell expansion and fate acquisition through the N-degron pathway.

KDM7-mediated oxygen sensing reprograms chromatin to enhance hypoxia tolerance in the root

The paper shows that KDM7s act as oxygen sensors in Arabidopsis root tips, reprogramming chromatin to enhance hypoxia tolerance by increasing H3K4me3.

Gene network inference and master regulator analysis identifies the estrogen-related receptor gamma (ERRγ) as a therapeutic target for alcohol use disorder (AUD).

Genomic characterization of the recent monkeypox outbreak

The paper analyzes Monkeypox virus genomes from the 2022 outbreak and compares them to historical and related sequences to determine their origin and genetic characteristics.

Smoking-dependent expression alterations in nasal epithelium reveal immune impairment linked to germline variation and lung cancer risk

The paper identifies persistent smoking-related immune alterations in airway tissues and links them to genetic risk factors and lung cancer risk using transcriptomic data and GWAS integration.

Structural Genetics of circulating variants affecting the SARS CoV-2 Spike / human ACE2 complex

The paper identifies key amino acids in SARS-CoV-2 Spike and human ACE2 that affect viral entry and identifies variants in these proteins associated with infection susceptibility.

A Modular Master Regulator Landscape Determines the Impact of Genetic Alterations on the Transcriptional Identity of Cancer Cells

The paper identifies 407 Master-Regulator proteins that canalize cancer genomics into transcriptional subtypes and links genetic alterations to tumor biology through modular regulatory architectures.

Exploiting Molecular Basis of Age and Gender Differences in Outcomes of SARS-CoV-2 Infections.

The paper identifies molecular links between SARS-CoV-2 infection and age-related gene expression changes, highlighting specific genes affected in elderly patients.

coronapp: a Web Application to Annotate and Monitor SARS-CoV-2 Mutations

The paper introduces a web tool, coronapp, to annotate and monitor SARS-CoV-2 mutations using user-provided genomic sequences and global mutation data.

Systematic Elucidation and Validation of OncoProtein-Centric Molecular Interaction Maps

The paper introduces an algorithm to reconstruct context-specific molecular interaction maps centered on oncoproteins, validating it with KRAS in lung adenocarcinoma and identifying novel synthetic lethal proteins.

Master Regulator Analysis of the SARS-CoV-2/Human interactome

The paper analyzes the SARS-CoV-2/human interactome to identify key regulatory mechanisms affected by infection, highlighting apoptotic and mitochondrial pathways and ACE2 receptor downregulation.

corto: a lightweight R package for Gene NetworkInference and Master Regulator Analysis

corto is a lightweight R package for gene network inference and master regulator analysis, benchmarked on human tumor and normal tissue datasets.

Genomic variance of the 2019-nCoV coronavirus

The paper constructs a phylogenetic tree of 2019-nCoV genomes, identifies two hyper-variable regions, and compares proteomic features with other coronaviruses.

Pan-Cancer and Single-Cell modelling of genomic alterations through gene expression

This study predicts genomic alterations from gene expression in multiple cancers, showing gene aggregation improves prediction accuracy in noisy single-cell data.