Hassan Gharibi

Multi-omics uncover interactions in the vaginal microbiome and a type II secretion/Tad pilus system in Gardnerella species

This study uses multi-omics to uncover Gardnerella genomic features linked to biofilm formation and interspecies interactions in the vaginal microbiome, identifying potential therapeutic targets for bacterial vaginosis.

ThermoTargetMiner Charts the Proteome-Wide Target Landscape of Lung Cancer Therapeutics

The paper introduces ThermoTargetMiner, a database that identifies protein targets of lung cancer therapeutics using the PISA assay, revealing novel targets for 77% of tested compounds.

High-ratiO partiaL proteolysiS with carriER proteome (HOLSER) Enables Global Structure Profiling and Site-resolved Elucidation of Ligand-Protein Interactions

HOLSER improves proteome coverage and depth for structural analysis of protein-ligand interactions and conformational changes.

Transcriptomic-guided compound prioritization and proteomics validation for HNRNPU deficiency identify signalling correction

The paper develops a transcriptomic-guided compound prioritization pipeline and validates it with proteomics, identifying two compounds that partially rescue HNRNPU deficiency phenotypes.

Peptide-to-protein data aggregation using Fisher's method improves target identification in chemical proteomics

The paper improves target identification in chemical proteomics by using Fisher's method to aggregate peptide-level data instead of protein-level data.

Above-Filter Digestion Proteomics reveals drug targets and localizes ligand binding site

The paper introduces AFDIP, a chemical proteomics method that identifies drug target binding sites with high structural resolution using digestion rate analysis and MD simulations.

Low-nanogram Fourier Transform Isotopic Ratio Mass Spectrometry of Proteins

This study demonstrates that Fourier Transform Isotopic Ratio Mass Spectrometry can reliably analyze isotope ratios from less than 10 ng of protein, enabling single-cell-scale stable isotope analysis.

Towards a species search engine: KISSE offers a rigorous statistical framework for bone collagen tandem mass spectrometry data

The paper introduces KISSE, a statistical framework for species identification using bone collagen tandem mass spectrometry data, which provides species identification and probability estimates.

Standardizing protein corona characterization in nanomedicine: a multi-center study to enhance reproducibility and data homogeneity

This study standardizes protein corona characterization across proteomics centers, improving data consistency and reproducibility through unified protocols and workflows.

Massive solubility changes of neuronal proteins upon simulated traumatic brain injury reveal the role of shockwave in irreversible damage

This study simulates traumatic brain injury using a dummy head to generate g-force and shockwave, revealing proteome solubility changes and identifying shockwave as the main cause of irreversible cell damage.