[HTML][HTML] Deciphering bacterial epigenomes using modern sequencing technologies
J Beaulaurier, EE Schadt, G Fang - Nature Reviews Genetics, 2019 - nature.com
Prokaryotic DNA contains three types of methylation: N6-methyladenine, N4-methylcytosine
and 5-methylcytosine. The lack of tools to analyse the frequency and distribution of …
and 5-methylcytosine. The lack of tools to analyse the frequency and distribution of …
A survey of the genetics of stomach, liver, and adipose gene expression from a morbidly obese cohort
To map the genetics of gene expression in metabolically relevant tissues and investigate
the diversity of expression SNPs (eSNPs) in multiple tissues from the same individual, we …
the diversity of expression SNPs (eSNPs) in multiple tissues from the same individual, we …
[HTML][HTML] Liver and adipose expression associated SNPs are enriched for association to type 2 diabetes
Genome-wide association studies (GWAS) have demonstrated the ability to identify the
strongest causal common variants in complex human diseases. However, to date, the massive …
strongest causal common variants in complex human diseases. However, to date, the massive …
Metagenomic binning and association of plasmids with bacterial host genomes using DNA methylation
Shotgun metagenomics methods enable characterization of microbial communities in human
microbiome and environmental samples. Assembly of metagenome sequences does not …
microbiome and environmental samples. Assembly of metagenome sequences does not …
Evolutionary dynamics of Vibrio cholerae O1 following a single-source introduction to Haiti
Prior to the epidemic that emerged in Haiti in October of 2010, cholera had not been
documented in this country. After its introduction, a strain of Vibrio cholerae O1 spread rapidly …
documented in this country. After its introduction, a strain of Vibrio cholerae O1 spread rapidly …
[HTML][HTML] Single molecule-level detection and long read-based phasing of epigenetic variations in bacterial methylomes
Beyond its role in host defense, bacterial DNA methylation also plays important roles in the
regulation of gene expression, virulence and antibiotic resistance. Bacterial cells in a clonal …
regulation of gene expression, virulence and antibiotic resistance. Bacterial cells in a clonal …
Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities
Viruses are the most abundant biological entities on Earth and play key roles in host ecology,
evolution, and horizontal gene transfer. Despite recent progress in viral metagenomics, the …
evolution, and horizontal gene transfer. Despite recent progress in viral metagenomics, the …
Mapping and characterizing N6-methyladenine in eukaryotic genomes using single-molecule real-time sequencing
… (I,J) Distribution of IPD ratios for partially methylated m 6 dA sites and nonmethylated A's
based on aggregate analysis (I) and single-molecule level analysis (J). The inset provides an …
based on aggregate analysis (I) and single-molecule level analysis (J). The inset provides an …
Novel integrative elements and genomic plasticity in ocean ecosystems
Horizontal gene transfer accelerates microbial evolution. The marine picocyanobacterium
Prochlorococcus exhibits high genomic plasticity, yet the underlying mechanisms are elusive. …
Prochlorococcus exhibits high genomic plasticity, yet the underlying mechanisms are elusive. …
LamPORE: rapid, accurate and highly scalable molecular screening for SARS-CoV-2 infection, based on nanopore sequencing
P James, D Stoddart, ED Harrington, J Beaulaurier… - MedRxiv, 2020 - medrxiv.org
LamPORE™ is a rapid way of testing/screening large numbers of samples for the presence
or absence of SARS-CoV-2, the virus causing COVID-19. It combines barcoded multi-target …
or absence of SARS-CoV-2, the virus causing COVID-19. It combines barcoded multi-target …