Sébastien A. Choteau
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View article: mimicINT: A workflow for microbe-host protein interaction inference
mimicINT: A workflow for microbe-host protein interaction inference Open
Background The increasing incidence of emerging infectious diseases is posing serious global threats. Therefore, there is a clear need for developing computational methods that can assist and speed up experimental research to better chara…
View article: mimicINT: A workflow for microbe-host protein interaction inference
mimicINT: A workflow for microbe-host protein interaction inference Open
Background The increasing incidence of emerging infectious diseases is posing serious global threats. Therefore, there is a clear need for developing computational methods that can assist and speed up experimental research to better chara…
View article: InteractORF, predictions of human sORF functions from an interactome study
InteractORF, predictions of human sORF functions from an interactome study Open
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 encod…
View article: Modulation of human kinase activity through direct interaction with SARS-CoV-2 proteins
Modulation of human kinase activity through direct interaction with SARS-CoV-2 proteins Open
The dysregulation of cellular signaling upon SARS-CoV-2 infection is mediated via direct protein interactions, with the human protein kinases constituting the major impact nodes in the signaling networks. Here, we employed a targeted yeast…
View article: A gut meta-interactome map reveals modulation of human immunity by microbiome effectors
A gut meta-interactome map reveals modulation of human immunity by microbiome effectors Open
SUMMARY The molecular mechanisms by which the gut microbiome influences human health remain largely unknown. Pseudomonadota is the third most abundant phylum in normal gut microbiomes. Several pathogens in this phylum can inject so-called …
View article: mimicINT demo files
mimicINT demo files Open
Demo files for mimicINT (a workflow for microbe-host protein interaction inference). Please check our preprint https://doi.org/10.1101/2022.11.04.515250 at and the documentation of the worflow at at https://github.com/TAGC-NetworkBiology/m…
View article: mimicINT demo files
mimicINT demo files Open
Demo files for mimicINT (a workflow for microbe-host protein interaction inference). Please check our preprint https://doi.org/10.1101/2022.11.04.515250 at and the documentation of the worflow at at https://github.com/TAGC-NetworkBiology/m…
View article: <i>mimic</i> INT: a workflow for microbe-host protein interaction inference
<i>mimic</i> INT: a workflow for microbe-host protein interaction inference Open
Background The increasing incidence of emerging infectious diseases is posing serious global threats. Therefore, there is a clear need for developing computational methods that can assist and speed up experimental research to better charac…
View article: In Depth Exploration of the Alternative Proteome of Drosophila melanogaster
In Depth Exploration of the Alternative Proteome of Drosophila melanogaster Open
Recent studies have shown that hundreds of small proteins were occulted when protein-coding genes were annotated. These proteins, called alternative proteins, have failed to be annotated notably due to the short length of their open readin…
View article: In depth exploration of the alternative proteome of <i>Drosophila melanogaster</i>
In depth exploration of the alternative proteome of <i>Drosophila melanogaster</i> Open
Recent studies have shown that hundreds of small proteins were occulted when protein coding genes were annotated. These proteins, called alternative proteins, have failed to be annotated notably due to the short length of their open readin…
View article: MetamORF: a repository of unique short open reading frames identified by both experimental and computational approaches for gene and metagene analyses
MetamORF: a repository of unique short open reading frames identified by both experimental and computational approaches for gene and metagene analyses Open
The development of high-throughput technologies revealed the existence of non-canonical short open reading frames (sORFs) on most eukaryotic ribonucleic acids. They are ubiquitous genetic elements conserved across species and suspected to …
View article: Proteostasis in dendritic cells is controlled by the PERK signaling axis independently of ATF4
Proteostasis in dendritic cells is controlled by the PERK signaling axis independently of ATF4 Open
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 h…
View article: MetamORF: A repository of unique short Open Reading Frames identified by both experimental and computational approaches for gene-level and meta-analysis
MetamORF: A repository of unique short Open Reading Frames identified by both experimental and computational approaches for gene-level and meta-analysis Open
The development of high-throughput technologies revealed the existence of non-canonical short open reading frames (sORFs) on most eukaryotic RNAs. They are ubiquitous genetic elements highly conserved across species and suspected to be inv…
View article: Developmentally regulated PERK activity renders dendritic cells insensitive to subtilase cytotoxin-induced integrated stress response
Developmentally regulated PERK activity renders dendritic cells insensitive to subtilase cytotoxin-induced integrated stress response Open
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…
View article: High-Density Lipoprotein-Associated miR-223 Is Altered after Diet-Induced Weight Loss in Overweight and Obese Males
High-Density Lipoprotein-Associated miR-223 Is Altered after Diet-Induced Weight Loss in Overweight and Obese Males Open
HDL-associated miR-223 levels are significantly decreased after HP diet-induced weight loss in overweight and obese males. This is the first study reporting changes in HDL-associated miRNA levels with diet-induced weight loss.