Mehdi Bouhaddou

This study identifies conserved kinase signaling responses in corals under acute heat stress, revealing molecular mechanisms that may contribute to bleaching.

This study identifies age-associated senescent CD4+ T cells as drivers of autoimmunity in CIDP, showing that senolytic and senomorphic therapies can mitigate disease.

This study integrates multi-omics data to compare endothelial cell responses to New and Old World hantaviruses, identifying species-specific immune and cellular mechanisms.

This study shows the SARS-CoV-2 nucleocapsid protein drives hyperinflammation and vascular leakage in macrophages via Toll-like receptor signaling, contributing to severe COVID-19 complications.

This study shows HIV-1 infected immune cells alter cervical cancer pathways through paracrine signals, with upregulated PI3K-AKT and interferon-stimulated genes.

This study develops methods for coral metabolomics, evaluating sample fixation and storage effects, and introduces tools for metabolite annotation and multi-omics analysis.

This study shows that LKB1 spatially regulates AMPK activity in response to oxidative stress, affecting metabolic and gene expression changes, and identifies impaired LKB1-AMPK signaling in certain cancers.

This study identifies phosphoregulation of nuclear protein complexes by HIV-1 latency-reversing agents, revealing shared mechanisms across different LRAs.

This study identifies SLC2A3 as a key factor for Old World alphavirus neuroinvasion through BBB infection, revealing a conserved mechanism across multiple viruses.

The paper shows HIV Vpr degrades CCDC137 via a nucleolar ATR pathway, causing nucleolar stress and ribosome biogenesis repression, independent of G2/M arrest.

The paper identifies human kinase motifs in viral proteomes, showing enrichment for stress and immune-related kinases and their phosphorylation in infected cells.

The paper identifies potent host-targeted antivirals against Mpox virus through high-throughput screening of a kinase inhibitor library, showing efficacy in vitro and in a mouse model.

This study identifies CebN, a Chlamydia trachomatis effector that targets nucleoporins and Rae1 to disrupt STAT1 nuclear import, aiding bacterial survival.

The paper constructs a PPI network of 100 high-confidence ASD genes, identifies novel interactions, and uses AlphaFold-Multimer to prioritize variants for functional validation in organoids.

This paper introduces DL-MRA, a method to infer network structures from perturbation time course data, showing it can robustly identify small networks but has limitations for signaling networks.

The paper systematically analyzes proteomic and genomic data of SARS-CoV-2 variants to identify how mutations affect viral gene expression, host interactions, and immune evasion.

The paper develops an open-source, scalable mechanistic model for single-cell proliferation and death signaling, demonstrating its application to understand IFNγ's anti-proliferative effects.

Affinity-purification mass spectrometry of 26 SARS-CoV-2 proteins in HEK293T cells yields 332 high-confidence host interactions and 67 druggable human proteins with known compounds.

The paper quantifies gene-specific predictability of protein levels from mRNA data across human tissues and identifies factors influencing this predictability.

The paper constructs a mechanistic model of pan-cancer driver pathways to predict stochastic proliferation and death in cancer cells.

The paper investigates copy number loss of the ERBB4 gene in glioblastoma, finding it is not a driver mutation or predisposing factor, despite initial hypotheses from cell line data.

This study compares 3-DGE and conventional mRNAseq, finding similar gene expression results with 3-DGE offering cost savings and scalability.