A practical guide to amplicon and metagenomic analysis of microbiome data
Advances in high-throughput sequencing (HTS) have fostered rapid developments in the
field of microbiome research, and massive microbiome datasets are now being generated …
field of microbiome research, and massive microbiome datasets are now being generated …
Machine learning for microbiologists
Abstract Machine learning is increasingly important in microbiology where it is used for tasks
such as predicting antibiotic resistance and associating human microbiome features with …
such as predicting antibiotic resistance and associating human microbiome features with …
The person-to-person transmission landscape of the gut and oral microbiomes
The human microbiome is an integral component of the human body and a co-determinant
of several health conditions,. However, the extent to which interpersonal relations shape the …
of several health conditions,. However, the extent to which interpersonal relations shape the …
Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4
Metagenomic assembly enables new organism discovery from microbial communities, but it
can only capture few abundant organisms from most metagenomes. Here we present …
can only capture few abundant organisms from most metagenomes. Here we present …
Towards the biogeography of prokaryotic genes
Microbial genes encode the majority of the functional repertoire of life on earth. However,
despite increasing efforts in metagenomic sequencing of various habitats,–, little is known …
despite increasing efforts in metagenomic sequencing of various habitats,–, little is known …
Best practices for analysing microbiomes
Complex microbial communities shape the dynamics of various environments, ranging from
the mammalian gastrointestinal tract to the soil. Advances in DNA sequencing technologies …
the mammalian gastrointestinal tract to the soil. Advances in DNA sequencing technologies …
A deep siamese neural network improves metagenome-assembled genomes in microbiome datasets across different environments
Metagenomic binning is the step in building metagenome-assembled genomes (MAGs)
when sequences predicted to originate from the same genome are automatically grouped …
when sequences predicted to originate from the same genome are automatically grouped …
Expanded catalog of microbial genes and metagenome-assembled genomes from the pig gut microbiome
C Chen, Y Zhou, H Fu, X **ong, S Fang, H Jiang… - Nature …, 2021 - nature.com
Gut microbiota plays an important role in pig health and production. Still, availability of
sequenced genomes and functional information for most pig gut microbes remains limited …
sequenced genomes and functional information for most pig gut microbes remains limited …
Mucins and the microbiome
GC Hansson - Annual review of biochemistry, 2020 - annualreviews.org
Generating the barriers that protect our inner surfaces from bacteria and other challenges
requires large glycoproteins called mucins. These come in two types, gel-forming and …
requires large glycoproteins called mucins. These come in two types, gel-forming and …
Shotgun metagenomics, from sampling to analysis
Diverse microbial communities of bacteria, archaea, viruses and single-celled eukaryotes
have crucial roles in the environment and in human health. However, microbes are …
have crucial roles in the environment and in human health. However, microbes are …