A5036763840- RNA and protein synthesis mechanisms
- Genomics and Phylogenetic Studies
- Machine Learning in Bioinformatics
- RNA regulation and disease
- Bioinformatics and Genomic Networks
- interferon and immune responses
- Heat shock proteins research
- Circular RNAs in diseases
- MicroRNA in disease regulation
- Neuroinflammation and Neurodegeneration Mechanisms
- Plant Pathogenic Bacteria Studies
- Melanoma and MAPK Pathways
- CRISPR and Genetic Engineering
- RNA Research and Splicing
- Plant-Microbe Interactions and Immunity
- Cancer-related molecular mechanisms research
- Ubiquitin and proteasome pathways
- Endoplasmic Reticulum Stress and Disease
- SARS-CoV-2 and COVID-19 Research
- Gut microbiota and health
- RNA modifications and cancer
- Extracellular vesicles in disease
Inserm
2020-2024
Aix-Marseille Université
2020-2024
Centre National de la Recherche Scientifique
2020-2024
Theories and Approaches of Genomic Complexity
2020-2022
Centre d’Immunologie de Marseille-Luminy
2020
UNSW Sydney
2016-2018
The development of high-throughput technologies revealed the existence non-canonical short open reading frames (sORFs) on most eukaryotic ribonucleic acids. They are ubiquitous genetic elements conserved across species and suspected to be involved in numerous cellular processes. MetamORF (https://metamorf.hb.univ-amu.fr/) aims provide a repository unique sORFs identified human mouse genomes with both experimental computational approaches. By gathering publicly available sORF data,...
<ns4:p>Background The increasing incidence of emerging infectious diseases is posing serious global threats. Therefore, there a clear need for developing computational methods that can assist and speed up experimental research to better characterize the molecular mechanisms microbial infections. Methods In this context, we developed <ns4:italic>mimic</ns4:italic>INT, an open-source workflow large-scale protein-protein interaction inference between microbe human by detecting putative mimicry...
<ns3:p>Background The increasing incidence of emerging infectious diseases is posing serious global threats. Therefore, there a clear need for developing computational methods that can assist and speed up experimental research to better characterize the molecular mechanisms microbial infections. Methods In this context, we developed <ns3:italic>mimic</ns3:italic>INT, an open-source workflow large-scale protein-protein interaction inference between microbe human by detecting putative mimicry...
Background and Aims microRNAs (miRNAs) are small, endogenous non-coding RNAs that regulate metabolic processes, including obesity. The levels of circulating miRNAs affected by changes in obesity, as well diet-induced weight loss. Circulating transported high-density lipoproteins (HDL) but the regulation HDL-associated after loss has not been studied. We aim to determine if miR-16, miR-17, miR-126, miR-222 miR-223 altered overweight obese males. Methods HDL were isolated from 47 subjects...
In stressed cells, phosphorylation of eukaryotic initiation factor 2α (eIF2α) controls transcriptome-wide changes in mRNA translation and gene expression known as the integrated stress response. We show here that DCs are characterized by high eIF2α phosphorylation, mostly caused activation ER kinase PERK (EIF2AK3). Despite p-eIF2α levels, display active protein synthesis no signs a chronic This biochemical specificity prevents arrest transcription ATF4 during ER-stress induction subtilase...
Recent studies have shown that hundreds of small proteins were occulted when protein-coding genes annotated. These proteins, called alternative failed to be annotated notably due the short length their open reading frame (less than 100 codons) or enforced rule establishing messenger RNAs (mRNAs) are monocistronic. Several biologically active molecules and seem involved in a wide range biological functions. However, genome-wide exploration proteome is still limited few species. In present...
SUMMARY The molecular mechanisms by which the gut microbiome influences human health remain largely unknown. Pseudomonadota is third most abundant phylum in normal microbiomes. Several pathogens this can inject so-called virulence effector proteins into host cells. We report identification of intact type 3 secretion systems (T3SS) 5 - 20% commensal To understand their functions, we experimentally generated a high-quality protein-protein meta-interactome map consisting 1,263 interactions...
Abstract Short Open Reading Frames (sORFs) are ubiquitous genomic elements that have been overlooked for years, essentially due to their short length (< 100 residues) and the use of alternative start codons (other than AUG). However, some may encode functional peptides, so-called sORF-encoded peptides (sPEPs), whose functions remain mainly unknown. In this study, we propose a system approach determine sPEPs in monocytes. We first predicted interactions with canonical proteins analyzed...
Abstract The increasing incidence of emerging infectious diseases is posing serious global threats. Therefore, there a clear need for developing computational methods that can assist and speed-up experimental research to better characterize the molecular mechanisms microbial infections. In this context, we developed mimic INT, freely available workflow large-scale protein-protein interaction inference between microbe human by detecting putative mimicry elements mediate with host proteins:...
Abstract The dysregulation of cellular signaling upon SARS-CoV-2 infection is mediated via direct protein interactions, with the human kinases constituting major impact nodes in networks. Here, we employed a targeted yeast two-hybrid matrix approach to identify interactions an extensive set kinases. We discovered 51 involving 14 proteins and 29 kinases, including many CAMK CMGC kinase family members, as well non-receptor tyrosine By integrating identified our screen transcriptomics...
Abstract In stressed cells, phosphorylation of eukaryotic initiation factor 2α (eIF2α) controls transcriptome-wide changes in mRNA translation and gene expression known as the integrated stress response (ISR). We show here that dendritic cells (DCs) display unusually high eIF2α phosphorylation, which is mostly caused by a developmentally regulated activation ER kinase PERK (EIF2AK3). Despite p-eIF2α levels, differentiated DCs active protein synthesis no signs chronic ISR. does not majorly...
ABSTRACT The development of high-throughput technologies revealed the existence non-canonical short open reading frames (sORFs) on most eukaryotic RNAs. They are ubiquitous genetic elements highly conserved across species and suspected to be involved in numerous cellular processes. MetamORF ( http://metamorf.hb.univ-amu.fr/ ) aims provide a repository unique sORFs identified human mouse genomes with both experimental computational approaches. By gathering publicly available sORF data,...
Abstract Recent studies have shown that hundreds of small proteins were occulted when protein coding genes annotated. These proteins, called alternative failed to be annotated notably due the short length their open reading frame (less than 100 codons) or enforced rule establishing messenger RNAs (mRNAs) are monocystronic. Several biologically active molecules and seem involved in a wide range biological functions. However, genome exploration proteome is still limited few species. In present...