Mawussé Agbessi
A5055663494- Genetic Associations and Epidemiology
- Oil Palm Production and Sustainability
- Evolution and Genetic Dynamics
- Epigenetics and DNA Methylation
- Cancer Genomics and Diagnostics
- Gene expression and cancer classification
- Genetic Mapping and Diversity in Plants and Animals
- Genomics and Rare Diseases
- Bioinformatics and Genomic Networks
- Genomics and Chromatin Dynamics
- Birth, Development, and Health
- Cognitive Abilities and Testing
- Diabetes Treatment and Management
- Autism Spectrum Disorder Research
- Acute Myeloid Leukemia Research
- Genetic diversity and population structure
- Forensic and Genetic Research
- Liver Disease Diagnosis and Treatment
- Health, Environment, Cognitive Aging
- Chromosomal and Genetic Variations
- Nutrition, Genetics, and Disease
- Genomic variations and chromosomal abnormalities
- Legume Nitrogen Fixing Symbiosis
- RNA modifications and cancer
- Single-cell and spatial transcriptomics
Ontario Institute for Cancer Research
2018-2023
University of Toronto
2020
Centre Hospitalier Universitaire Sainte-Justine
2017
Université de Montréal
2016-2017
Diversité, adaptation et développement des plantes
2014-2016
Centre de Coopération Internationale en Recherche Agronomique pour le Développement
2015-2016
Institut de Recherche pour le Développement
2014-2015
Agropolis International
2014-2015
Summary While many disease-associated variants have been identified through genome-wide association studies, their downstream molecular consequences remain unclear. To identify these effects, we performed cis- and trans-expression quantitative trait locus (eQTL) analysis in blood from 31,684 individuals the eQTLGen Consortium. We observed that cis -eQTLs can be detected for 88% of studied genes, but they a different genetic architecture compared to variants, limiting our ability use pinpoint...
Abstract Genome-wide association studies (GWAS) have identified thousands of variants associated with complex traits, but their biological interpretation often remains unclear. Most these overlap expression QTLs, indicating potential involvement in regulation gene expression. Here, we propose a transcriptome-wide summary statistics-based Mendelian Randomization approach (TWMR) that uses multiple SNPs as instruments and traits exposures, simultaneously. Applied to 43 human phenotypes, it...
We use a genome-wide association of 1 million parental lifespans genotyped subjects and data on mortality risk factors to validate previously unreplicated findings near CDKN2B-AS1, ATXN2/BRAP, FURIN/FES, ZW10, PSORS1C3, 13q21.31, identify replicate novel ABO, ZC3HC1, IGF2R. also previous 5q33.3/EBF1 FOXO3, whilst finding contradictory evidence at other loci. Gene set cell-specific analyses show that expression in foetal brain cells adult dorsolateral prefrontal cortex is enriched for...
Most existing TWAS tools require individual-level eQTL reference data and thus are not applicable to summary-level datasets. The development of methods that can harness is valuable enable in broader settings enhance power due increased sample size. Thus, we develop a framework called OTTERS (Omnibus Transcriptome Test using Expression Reference Summary data) adapts multiple polygenic risk score (PRS) estimate weights from conducts an omnibus TWAS. We show practical powerful tool by both...
Humans have colonized the planet through a series of range expansions, which deeply impacted genetic diversity in newly settled areas and potentially increased frequency deleterious mutations on expanding wave fronts. To test this prediction, we studied genomic French Canadians who Quebec 17th century. We used historical information records from ∼4000 ascending genealogies to select individuals whose ancestors lived mostly colonizing front remained core settlement. Comparison exomic reveals...
Summary Global demand for vegetable oils is increasing at a dramatic rate, while our understanding of the regulation oil biosynthesis in plants remains limited. To gain insights into mechanisms that govern synthesis and fatty acid ( FA ) composition palm fruit, we used multilevel approach combining gene coexpression analysis, quantification allele‐specific expression joint multivariate analysis transcriptomic lipid data, an interspecific backcross population between African palm, Elaeis...
Summary Root‐knot nematodes secrete proteinaceous effectors into plant tissues to facilitate infection by suppressing host defences and reprogramming the metabolism their benefit. Meloidogyne graminicola is a major pest of rice ( Oryza sativa ) in Asia Latin America, causing important crop losses. The goal this study was identify M. pathogenicity genes expressed during plant–nematode interaction. Using dual RNA‐sequencing (RNA‐seq) strategy, we generated transcriptomic data samples covering...
Abstract Aims/hypothesis Type 2 diabetes increases the risk of cardiovascular and renal complications, but early prediction could lead to timely intervention better outcomes. Genetic information can be used enable detection risk. Methods We developed a multi-polygenic score (multiPRS) that combines ten weighted PRSs (10 wPRS) composed 598 SNPs associated with main factors outcomes type diabetes, derived from summary statistics data genome-wide association studies. The 10 wPRS, first...
Abstract BACKGROUND: Clonal hematopoiesis (CH) occurs when hematopoietic cells acquire somatic mutations and proliferate to generate clones in blood. CH can be driven by mosaic chromosomal alterations (mCAs), which are large structural variants, is associated with increased risk of blood malignancy. We conducted a genome-wide search for sites significantly more or less impacted mCA events, termed hotspots coldspots. tested whether the odds malignancy participants harboring mCAs overlapping...
The binding of PRDM9 to chromatin is a key step in the induction DNA double-strand breaks associated with meiotic recombination hotspots; it normally expressed solely germ cells. We interrogated 1879 cancer samples 39 different types and found that unexpectedly 20% these tumors even after stringent gene homology correction. expression levels are significantly higher than those healthy neighboring tissues nongerm tissue databases. Recurrently mutated regions located within 5 Mb loci, as well...
The mantled floral phenotype of oil palm (Elaeis guineensis) affects somatic embryogenesis-derived individuals and is morphologically similar to mutants defective in the B-class MADS-box genes. This somaclonal variation has been previously demonstrated be associated a significant deficit genome-wide DNA methylation. In order elucidate possible role methylation transcriptional regulation EgDEF1, APETALA3 ortholog palm, we studied this epigenetic mark within gene parallel with transcript...
The explosion of NGS (Next Generation Sequencing) sequence data requires a huge effort in Bioinformatics methods and analyses. creation dedicated, robust reliable pipelines able to handle dozens samples from raw FASTQ relevant biological is time-consuming task all projects relying on NGS. To address this, we created generic modular toolbox for developing such pipelines. TOGGLE (TOolbox Generic nGs anaLysEs) suite tools design that manage large sets softwares utilities. Moreover, offers an...
The oil palm (Elaeis guineensis Jacq.) is a major cultivated crop and the world's largest source of edible vegetable oil. genus Elaeis comprises two species E. guineensis, commercial African oleifera, which used in genetic breeding. recent publication both genome assembly first draft sequence its Latin American relative now allows us to tackle challenge understanding composition, structure evolution these genomes through annotation their repeated sequences. In this study, we identified,...
Age-related clonal hematopoiesis (ARCH) is characterized by age-associated accumulation of somatic mutations in hematopoietic stem cells (HSCs) or their pluripotent descendants. HSCs harboring driver will be positively selected and carrying these rise frequency. While ARCH a known risk factor for blood malignancies, such as Acute Myeloid Leukemia (AML), why some people who harbor do not progress to AML remains unclear. Here, we model the interaction positive negative selection deeply...
How the genetic composition of a population changes through stochastic processes, such as drift, in combination with deterministic selection, is critical to understanding how phenotypes vary space and time. Here, we show evolutionary forces affecting including recombination effective size, drive genomic patterns allele-specific expression (ASE). Integrating tissue-specific genotypic transcriptomic data from 1500 individuals two different cohorts, demonstrate that ASE less often observed...
Abstract Humans have colonized the planet through a series of range expansions, which deeply impacted genetic diversity in newly settled areas and potentially increased frequency deleterious mutations on expanding wave fronts. To test this prediction, we studied genomic French Canadians who Quebec 17 th century. We used historical information records from ∼4000 ascending genealogies to select individuals whose ancestors lived mostly colonizing front remained core settlement. Comparison...
Abstract A small population of self-renewing, hematopoietic stem cells continuously reconstitutes our immune system. As we age, these cells, or their pluripotent descendants, accumulate somatic mutations; some mutations provide selection advantages and increase in frequency the peripheral blood cell population. This process positive selection, deemed age-related clonal hematopoiesis (ARCH), is associated with increased risk for cardiac disease malignancies, like acute myeloid leukemia (AML)....
Abstract Type 2 diabetes increases the risk of cardiovascular and renal complications, but early prediction can lead to timely intervention better outcomes. Through summary statistics meta-analyses published genome-wide association studies performed in over 1.2 million individuals, we combined 9 PRS gathering genomic variants associated diseases their key factors into one logistic regression model, predict micro- macrovascular endpoints diabetes. Its clinical utility predicting complications...