A5001570122- Metabolomics and Mass Spectrometry Studies
- Bioinformatics and Genomic Networks
- Advanced Proteomics Techniques and Applications
- Gene expression and cancer classification
- Diet and metabolism studies
- Computational Drug Discovery Methods
- Nutritional Studies and Diet
- Bacterial Identification and Susceptibility Testing
- Gut microbiota and health
- Genomics and Phylogenetic Studies
- Cancer-related molecular mechanisms research
- Face and Expression Recognition
- Autism Spectrum Disorder Research
- Genetics and Neurodevelopmental Disorders
- Mass Spectrometry Techniques and Applications
- Urinary Tract Infections Management
- Plant Molecular Biology Research
- Immune Cell Function and Interaction
- Inflammasome and immune disorders
- Cephalopods and Marine Biology
- Calcium Carbonate Crystallization and Inhibition
- Protein Structure and Dynamics
- Vitamin C and Antioxidants Research
- Remote-Sensing Image Classification
- Bayesian Methods and Mixture Models
Université Laval
2019-2025
Centre hospitalier de l'Université Laval
2020-2024
Centre hospitalier universitaire de Québec
2020-2024
Université de Montréal
2020
Wilfrid Laurier University
2019-2020
Centre Hospitalier Universitaire de Tivoli
2020
McGill University
2013-2016
Université du Québec à Montréal
2012-2016
University of Liège
1992-2015
Despite the central importance of noncoding DNA to gene regulation and evolution, understanding extent selection on plant remains limited compared that other organisms. Here we report sequencing genomes from three Brassicaceae species (Leavenworthia alabamica, Sisymbrium irio Aethionema arabicum) their joint analysis with six previously sequenced crucifer genomes. Conservation across orthologous bases suggests at least 17% Arabidopsis thaliana genome is under selection, nearly one-quarter...
Abstract Severe SARS-CoV-2 infections are characterized by lymphopenia, but the mechanisms involved still elusive. Based on our knowledge of HIV pathophysiology, we hypothesized that infection-mediated lymphopenia could also be related to T cell apoptosis. By comparing intensive care unit (ICU) and non-ICU COVID-19 patients with age-matched healthy donors, found a strong positive correlation between plasma levels soluble FasL (sFasL) surface expression Fas/CD95 propensity cells die CD4...
The identification of biomarker signatures in omics molecular profiling is usually performed to predict outcomes a precision medicine context, such as patient disease susceptibility, diagnosis, prognosis, and treatment response. To identify these signatures, we have developed discovery tool, called BioDiscML. From collection samples their associated characteristics, i.e., the biomarkers (e.g., gene expression, protein levels, clinico-pathological data), BioDiscML exploits various feature...
Over the past decade, data-independent acquisition mode has gained popularity for broad coverage of complex proteomes by LC-MS/MS and quantification low-abundance proteins. However, there is no consensus in literature on best data parameters processing tools to use this specific application. Here, we present most comprehensive comparison DIA workflows Orbitrap instruments published so far field proteomics. Using a standard human 48 proteins mixture (UPS1-Sigma) at 8 different concentrations...
Secreted phospholipase A2-IIA (sPLA2-IIA) hydrolyzes phospholipids to liberate lysophospholipids and fatty acids. Given its poor activity toward eukaryotic cell membranes, role in the generation of proinflammatory lipid mediators is unclear. Conversely, sPLA2-IIA efficiently bacterial membranes. Here, we show that affects immune system by acting on intestinal microbial flora. Using mice overexpressing transgene-driven human sPLA2-IIA, found microbiota was critical for both induction an...
Drug repositioning offers numerous advantages, such as faster development timelines, reduced costs, and lower failure rates in drug development. Supervised machine learning is commonly used to score candidates but hindered by the lack of reliable negative data—drugs that fail due inefficacy or toxicity— which difficult access, lowering their prediction accuracy generalization. Positive-Unlabeled (PU) has been overcome this issue either randomly sampling unlabeled drugs identifying probable...
Fast identification of microbial species in clinical samples is essential to provide an appropriate antibiotherapy the patient and reduce prescription broad-spectrum antimicrobials leading antibioresistances. MALDI-TOF-MS technology has become a tool choice for but several drawbacks: it requires long step bacterial culture before analysis (≥24 h), low specificity not quantitative. We developed new strategy identifying urine using specific LC-MS/MS peptidic signatures. In first training step,...
MicroRNAs (miRNAs) are short RNA species derived from hairpin-forming miRNA precursors (pre-miRNA) and acting as key posttranscriptional regulators.Most computational tools labeled predictors in fact pre-miRNA provide no information about the putative location within pre-miRNA.Sequence structural features that determine of miRNA, extent to which these properties vary species, poorly understood.We have developed miRdup, a predictor for identification most likely given or validation candidate...
Sex differences in multiple sclerosis (MS) incidence and severity have long been recognized. However, the underlying cellular molecular mechanisms for why male sex is associated with more aggressive disease remain poorly defined. Using a T cell adoptive transfer model of chronic experimental autoimmune encephalomyelitis (EAE), we find that Th17 cells induce increased relative to female cells, irrespective whether transferred or recipients. Throughout course, greater frequency produce IFNγ,...
In this paper we introduce Armadillo v1.1, a novel workflow platform dedicated to designing and conducting phylogenetic studies, including comprehensive simulations. A number of important general bioinformatics tools have been included in the first software release. As is an open-source project, it allows scientists develop their own modules as well integrate existing computer applications. Using our platform, different complex tasks can be modeled presented single without any prior...
The aim was to identify the most important features of structural knee osteoarthritis (OA) progressors and classification using machine learning methods.Participants, outcomes were from Osteoarthritis Initiative. Features baseline (1107), including articular tissues (135) assessed by quantitative magnetic resonance imaging (MRI). OA ascertained four outcomes: cartilage volume loss in medial plateau at 48 96 months (Prop_CV_48M, 96M), Kellgren-Lawrence (KL) grade ⩾ 2 joint space narrowing...
MicroRNAs (miRNA) are short single-stranded RNA molecules derived from hairpin-forming precursors that play a crucial role as post-transcriptional regulators in eukaryotes and viruses.In the past years, many microRNA target genes (MTGs) have been identified experimentally.However, because of high costs experimental approaches, databases remain incomplete.Although several prediction programs developed recent years to identify MTGs silico, their specificity sensitivity low.Here, we propose new...
Industrially originated trans-fatty acids (I-tFAs), such as elaidic acid (EA), and ruminant (R-tFAs), trans-palmitoleic (TPA), may have opposite effects on metabolic health. The objective was to compare the of consuming 2–3% I-tFA or R-tFA gut microbiome fecal metabolite profile in mice after 7 28 days. Forty C57BL/6 were assigned one four prepared formulations: lecithin nanovesicles, nanovesicles with EA TPA, water. Fecal samples animals’ weights collected days 0, 7, 28. used determine...
Abstract Liquid Chromatography Mass Spectrometry (LC-MS) is a powerful method for profiling complex biological samples. However, batch effects typically arise from differences in sample processing protocols, experimental conditions, and data acquisition techniques, significantly impacting the interpretability of results. Correcting crucial reproducibility omics research, but current methods are not optimal removal without compressing genuine variation under study. We propose suite Batch...
Wheat is a major staple crop with broad adaptability to wide range of environmental conditions. This involves several stress and developmentally responsive genes, in which microRNAs (miRNAs) have emerged as important regulatory factors. However, the currently used approaches identify miRNAs this polyploid complex system focus on conserved highly expressed avoiding regularly those that are often lineage-specific, condition-specific, or appeared recently evolution. In addition, many biological...
Human infection with the coronavirus disease 2019 (COVID-19) is mediated by binding of spike protein severe acute respiratory syndrome 2 (SARS-CoV-2) to human angiotensin-converting enzyme (ACE2). The frequent mutations in receptor-binding domain (RBD) induced emergence variants increased contagion and can hinder vaccine efficiency. Hence, it crucial better understand mechanisms variant RBDs ACE2 develop efficient methods characterize this interaction. In work, we present an approach that...
MicroRNAs (miRNAs) are emerging as important post-transcriptional regulators that may regulate key genes responsible for agronomic traits such grain yield and stress tolerance. Several studies identified species clades specific miRNA families associated with plant regulated genes. Here, we propose a novel resource provides data related to the expression of abiotic responsive miRNAs in wheat, one most staple food crops. This database allows query small RNA libraries, including silico...
Scope Metabolomics is increasingly used to identify biomarkers of diet or chronic diseases, such as type 2 diabetes. Yet, metabolite signatures following dairy intake in hyperinsulinemic subjects have not been identified. The objective evaluate the effects a high (HD) for 6 weeks (4 servings more per day), compared with an adequate (AD) (2 less on serum profiles adults. Methods and results In this crossover trial, are randomized HD AD weeks. Serum metabolites assessed using GC/MS. Twenty‐six...
Perturbation of the major UGT2B17-dependent androgen catabolism pathway has potential to affect prostate cancer (PCa) progression. The objective was evaluate UGT2B17 protein expression in primary tumours relation hormone levels, disease characteristics and evolution.We conducted an analysis a high-density tumour tissue microarray consisting 239 localised PCa cases treated by radical prostatectomy (RP). Cox proportional hazard ratio used biochemical recurrence (BCR), linear regression model...