Marie-Michelle Simon
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View article: REST/NRSF Preserves muscle stem cell identity by repressing alternate cell fate
REST/NRSF Preserves muscle stem cell identity by repressing alternate cell fate Open
View article: REST/NRSF preserves muscle stem cell identity and survival by repressing alternate cell fates
REST/NRSF preserves muscle stem cell identity and survival by repressing alternate cell fates Open
Cell fate and identity require timely activation of lineage-specific and concomitant repression of alternate-lineage genes. How this process is epigenetically encoded remains largely unknown. In skeletal muscle stem cells (MuSCs), the myog…
View article: Capturing sex-specific and hypofertility-linked effects of assisted reproductive technologies on the cord blood DNA methylome
Capturing sex-specific and hypofertility-linked effects of assisted reproductive technologies on the cord blood DNA methylome Open
Background Children conceived through assisted reproduction are at an increased risk for growth and genomic imprinting disorders, often linked to DNA methylation defects. It has been suggested that assisted reproductive technology (ART) an…
View article: Transposable elements are associated with the variable response to influenza infection
Transposable elements are associated with the variable response to influenza infection Open
View article: Genome graphs detect human polymorphisms in active epigenomic state during influenza infection
Genome graphs detect human polymorphisms in active epigenomic state during influenza infection Open
View article: Datasets and Scripts associated with "Transposable elements are associated with the variable response to influenza infection"
Datasets and Scripts associated with "Transposable elements are associated with the variable response to influenza infection" Open
Scripts and datasets included here were used for the main analyses in the article "Transposable elements are associated with the variable response to influenza infection" (BioRxiv doi: https://doi.org/10.1101/2022.05.10.491101). Study Summ…
View article: Datasets and Scripts associated with "Transposable elements are associated with the variable response to influenza infection"
Datasets and Scripts associated with "Transposable elements are associated with the variable response to influenza infection" Open
Scripts and datasets included here were used for the main analyses in the article "Transposable elements are associated with the variable response to influenza infection" (BioRxiv doi: https://doi.org/10.1101/2022.05.10.491101). Study Summ…
View article: Additional file 3 of Capturing sex-specific and hypofertility-linked effects of assisted reproductive technologies on the cord blood DNA methylome
Additional file 3 of Capturing sex-specific and hypofertility-linked effects of assisted reproductive technologies on the cord blood DNA methylome Open
Additional file 3. List of all significant DMCs for the different comparisons performed.
View article: Additional file 5 of Capturing sex-specific and hypofertility-linked effects of assisted reproductive technologies on the cord blood DNA methylome
Additional file 5 of Capturing sex-specific and hypofertility-linked effects of assisted reproductive technologies on the cord blood DNA methylome Open
Additional file 5. List of all biological processes significantly associated with clusters through STRING analysis.
View article: Additional file 2 of Capturing sex-specific and hypofertility-linked effects of assisted reproductive technologies on the cord blood DNA methylome
Additional file 2 of Capturing sex-specific and hypofertility-linked effects of assisted reproductive technologies on the cord blood DNA methylome Open
Additional file 2. Information concerning imprinted control regions and their methylation analysis.
View article: Additional file 4 of Capturing sex-specific and hypofertility-linked effects of assisted reproductive technologies on the cord blood DNA methylome
Additional file 4 of Capturing sex-specific and hypofertility-linked effects of assisted reproductive technologies on the cord blood DNA methylome Open
Additional file 4. List of all significant GO terms discovered for the different comparisons performed
View article: Genome graphs detect human polymorphisms in active epigenomic states during influenza infection: validation
Genome graphs detect human polymorphisms in active epigenomic states during influenza infection: validation Open
Sanger sequencing and qPCR validation data for "Genome graphs detect human polymorphisms in active epigenomic states during influenza infection" manuscript.
View article: Genome graphs detect human polymorphisms in active epigenomic states during influenza infection: validation
Genome graphs detect human polymorphisms in active epigenomic states during influenza infection: validation Open
Sanger sequencing and qPCR validation data for "Genome graphs detect human polymorphisms in active epigenomic states during influenza infection" manuscript.
View article: Epigenetic variation impacts ancestry-associated differences in the transcriptional response to influenza infection
Epigenetic variation impacts ancestry-associated differences in the transcriptional response to influenza infection Open
Summary Humans display remarkable inter-individual variation in immune response when exposed to identical immune challenges. Yet, our understanding of the genetic and epigenetic factors contributing to such variation remains limited. Here …
View article: Transposable elements are associated with the variable response to influenza infection
Transposable elements are associated with the variable response to influenza infection Open
SUMMARY Influenza A virus (IAV) infections are frequent every year and result in a range of disease severity. Given that transposable elements (TEs) contribute to the activation of innate immunity, we wanted to explore their potential role…
View article: Application of ATAC-Seq for genome-wide analysis of the chromatin state at single myofiber resolution
Application of ATAC-Seq for genome-wide analysis of the chromatin state at single myofiber resolution Open
Myofibers are the main components of skeletal muscle, which is the largest tissue in the body. Myofibers are highly adaptive and can be altered under different biological and disease conditions. Therefore, transcriptional and epigenetic st…
View article: Detection of prevalent SARS-CoV-2 variant lineages in wastewater and clinical sequences from cities in Québec, Canada
Detection of prevalent SARS-CoV-2 variant lineages in wastewater and clinical sequences from cities in Québec, Canada Open
Wastewater-based epidemiology has emerged as a promising tool to monitor pathogens in a population, particularly when clinical diagnostic capacities become overwhelmed. During the ongoing COVID-19 pandemic caused by Severe Acute Respirator…
View article: Author response: Application of ATAC-Seq for genome-wide analysis of the chromatin state at single myofiber resolution
Author response: Application of ATAC-Seq for genome-wide analysis of the chromatin state at single myofiber resolution Open
View article: Genome graphs detect human polymorphisms in active epigenomic state during influenza infection
Genome graphs detect human polymorphisms in active epigenomic state during influenza infection Open
Genetic variants, including mobile element insertions (MEIs), are known to impact the epigenome. We hypothesized that the use of a genome graph, which encapsulates genetic diversity, could reveal missing epigenomic signal. Given the contri…
View article: Application of ATAC-Seq for genome-wide analysis of the chromatin state at single myofiber resolution
Application of ATAC-Seq for genome-wide analysis of the chromatin state at single myofiber resolution Open
Skeletal myofibers are the main components of skeletal muscle which is the largest tissue in the body. Myofibers are highly adaptive in nature and they can vary in different biological and disease conditions. Therefore, transcriptional and…
View article: Eosinophil microRNAs Play a Regulatory Role in Allergic Diseases Included in the Atopic March
Eosinophil microRNAs Play a Regulatory Role in Allergic Diseases Included in the Atopic March Open
(1) Background: The atopic march is defined by the increased prevalence of allergic diseases after atopic dermatitis onset. In fact, atopic dermatitis is believed to play an important role in allergen sensitization via the damaged skin bar…
View article: Large-Scale Analysis of Circulating Amino Acids and Adipose Gene Expression in Relation to Abdominal Obesity
Large-Scale Analysis of Circulating Amino Acids and Adipose Gene Expression in Relation to Abdominal Obesity Open
Background Circulating level of the amino acid glutamate is associated with central fat accumulation, yet the pathophysiology of this relationship remains unknown. We aimed to: i) refine and validate the association between circulating glu…
View article: Asthma-associated polymorphisms in 17q12-21 locus modulate methylation and gene expression of GSDMA in naïve CD4+ T cells
Asthma-associated polymorphisms in 17q12-21 locus modulate methylation and gene expression of GSDMA in naïve CD4+ T cells Open
View article: Single-cell analysis of human adipose tissue identifies depot- and disease-specific cell types
Single-cell analysis of human adipose tissue identifies depot- and disease-specific cell types Open
View article: <i>GSDMA</i>drives the most replicated association with asthma in naïve CD4<sup>+</sup>T cells
<i>GSDMA</i>drives the most replicated association with asthma in naïve CD4<sup>+</sup>T cells Open
Background The 17q12-21 locus is the most replicated association with asthma. However, no study had described the genetic mechanisms underlying this association considering all genes of the locus in immune cell samples isolated from asthma…
View article: Customized MethylC-Capture Sequencing to Evaluate Variation in the Human Sperm DNA Methylome Representative of Altered Folate Metabolism
Customized MethylC-Capture Sequencing to Evaluate Variation in the Human Sperm DNA Methylome Representative of Altered Folate Metabolism Open
Our sperm panel allowed the discovery of differential methylation following conditions affecting folate metabolism in novel dynamic sperm CpGs. Improved ability to examine variation in sperm DNA methylation can facilitate comprehensive stu…
View article: Integrative analysis of vascular endothelial cell genomic features identifies AIDA as a coronary artery disease candidate gene
Integrative analysis of vascular endothelial cell genomic features identifies AIDA as a coronary artery disease candidate gene Open
View article: Correction to: Functional variation in allelic methylomes underscores a strong genetic contribution and reveals novel epigenetic alterations in the human epigenome
Correction to: Functional variation in allelic methylomes underscores a strong genetic contribution and reveals novel epigenetic alterations in the human epigenome Open
Following publication of the original article [1], the authors reported an error in Additional file 1.
View article: Author Correction: An atlas of genetic influences on osteoporosis in humans and mice
Author Correction: An atlas of genetic influences on osteoporosis in humans and mice Open
View article: Dissecting features of epigenetic variants underlying cardiometabolic risk using full-resolution epigenome profiling in regulatory elements
Dissecting features of epigenetic variants underlying cardiometabolic risk using full-resolution epigenome profiling in regulatory elements Open