:id: Scan contig files against PubMLST typing schemes - tseemann/mlst

⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads - tseemann/shovill

The program will involve sessions on Genome Evolution, Genome Regulation, Transcriptomics, Rare Diseases, Common Diseases, and Viral and Microbial Genomes. Committed speakers include Adam Phillipy (NH...

INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search - B-UMMI/INNUca

Panoptes, an anti-phage defence system against virus-mediated immune suppression, is revealed.

Accurate detection of mutations within bacterial species is critical for fundamental studies of microbial evolution, reconstructing transmission events, and identifying antimicrobial resistance mutati...

Szanowni Państwo, W niniejszej petycji prezentujemy List otwarty, który będzie wysłany do Kancelarii Prezydenta, Marszałków Sejmu i Senatu, Prezesa Rady Ministr&oacut...

Scientific Reports - Genome-wide identification of essential genes in the invasive Streptococcus anginosus strain

Genome-wide approaches have uncovered the vast microbial and viral diversity across ecosystems. This Review explores advances in metagenomics, single-cell sequencing and functional profiling to elucid...

Qu et al. present PHLAME, a method to analyze strain composition in metagenomic samples where many strains of the same species coexist. Using PHLAME, they show relationships between strain abundances ...

The first shipments of the NovaSeq X Series introduced XLEAP-SBS chemistry on Illumina’s next-generation high-throughput platform. With the 25B flow cell, NovaSeq X software update 1.2 enabled up to 1...

Abstract. Multiple sequence alignment trimming can help improve phylogenetic signal and reduce computational load. ClipKIT trims multiple sequence alignmen

This study highlights the capacity of a newly isolated staphylococcal <i>Phietavirus</i>, ASZ22RN, to transfer a low-copy-number shuttle <i>Staphylococcus aureus</i>-<i>Escherichia coli</i> plasmid to...

Background: Streptococcus anginosus, part of the Streptococcus anginosus group (SAG), is a human commensal increasingly recognized as an opportunistic pathogen responsible for abscesses formation and ...

No description available

In two longitudinal cohorts followed for 30 years, the associations of eight different dietary patterns with healthy aging—encompassing cognitive, physical and mental health—were studied, identifying ...

Atopic dermatitis (AD) is a common inflammatory skin disease, for which dysbiosis of the skin mycobiome is considered a triggering factor. The aim of this study was to explore the skin mycobiome of A...

Background The increasing amount of genomic data calls for tools that can create genome-scale phylogenies quickly and efficiently. Existing tools rely on large reference databases or require lengthy d...

Background Plastids are usually involved in photosynthesis, but the secondary loss of this function is a widespread phenomenon in various lineages of algae and plants. In addition to the loss of genes...

A Shiny app for taxonomic abundance visualization. Contribute to acvill/bracken_plot development by creating an account on GitHub.

Archaea are the least understood members of the microbiome. However, as tools for studying microbes improve, the archaeome—and its association with health and disease—is coming into focus.

Motivation Accurate determination and quantification of the taxonomic composition of microbial communities, especially at the species level, is one of the major issues in metagenomics. This is primari...

ChIP-DIP (ChIP done in parallel) is a highly multiplex assay for protein–DNA binding, scalable to hundreds of proteins including modified histones, chromatin regulators and transcription factors, offe...