Promises and pitfalls of using high‐throughput sequencing for diet analysis
The application of high‐throughput sequencing‐based approaches to DNA extracted from
environmental samples such as gut contents and faeces has become a popular tool for …
environmental samples such as gut contents and faeces has become a popular tool for …
Metagenomics: tools and insights for analyzing next-generation sequencing data derived from biodiversity studies
Advances in next-generation sequencing (NGS) have allowed significant breakthroughs in
microbial ecology studies. This has led to the rapid expansion of research in the field and …
microbial ecology studies. This has led to the rapid expansion of research in the field and …
Improving deep learning protein monomer and complex structure prediction using DeepMSA2 with huge metagenomics data
Leveraging iterative alignment search through genomic and metagenome sequence
databases, we report the DeepMSA2 pipeline for uniform protein single-and multichain …
databases, we report the DeepMSA2 pipeline for uniform protein single-and multichain …
MEGAN community edition-interactive exploration and analysis of large-scale microbiome sequencing data
There is increasing interest in employing shotgun sequencing, rather than amplicon
sequencing, to analyze microbiome samples. Typical projects may involve hundreds of …
sequencing, to analyze microbiome samples. Typical projects may involve hundreds of …
The InterPro protein families database: the classification resource after 15 years
A Mitchell, HY Chang, L Daugherty… - Nucleic acids …, 2015 - academic.oup.com
Abstract The InterPro database (http://www. ebi. ac. uk/interpro/) is a freely available
resource that can be used to classify sequences into protein families and to predict the …
resource that can be used to classify sequences into protein families and to predict the …
Rfam 12.0: updates to the RNA families database
The Rfam database (available at http://rfam. xfam. org) is a collection of non-coding RNA
families represented by manually curated sequence alignments, consensus secondary …
families represented by manually curated sequence alignments, consensus secondary …
An evaluation of the accuracy and speed of metagenome analysis tools
Metagenome studies are becoming increasingly widespread, yielding important insights into
microbial communities covering diverse environments from terrestrial and aquatic …
microbial communities covering diverse environments from terrestrial and aquatic …
The human mycobiome in health and disease
L Cui, A Morris, E Ghedin - Genome medicine, 2013 - Springer
The mycobiome, referring primarily to the fungal biota in an environment, is an important
component of the human microbiome. Despite its importance, it has remained understudied …
component of the human microbiome. Despite its importance, it has remained understudied …
EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies
AL Mitchell, M Scheremetjew, H Denise… - Nucleic acids …, 2018 - academic.oup.com
Abstract EBI metagenomics (http://www. ebi. ac. uk/metagenomics) provides a free to use
platform for the analysis and archiving of sequence data derived from the microbial …
platform for the analysis and archiving of sequence data derived from the microbial …
A review of bioinformatics tools for bio-prospecting from metagenomic sequence data
DD Roumpeka, RJ Wallace, F Escalettes… - Frontiers in …, 2017 - frontiersin.org
The microbiome can be defined as the community of microorganisms that live in a particular
environment. Metagenomics is the practice of sequencing DNA from the genomes of all …
environment. Metagenomics is the practice of sequencing DNA from the genomes of all …