The resulting metaproteomes had a skewed distribution relative to the metagenome, with more proteins for translation, energy production and carbohydrate metabolism when compared to what was earlier predicted from metagenomics. Human proteins, including antimicrobial peptides, were also identified, providing...
metagenomicsshotgun metagenomic sequencingbioinformaticsMicrobial communities present in diverse environments from deep seas to human body niches play significant roles in the complex ecosystem and human health. Characterizing their structural and functional diversities is indispensable, and many approaches, such...
Human papillomavirus community in healthy persons, defined by metagenomics analysis of human microbiome project shotgun sequencing data sets. Ma Y; Madupu R; Karaoz U;.Human papillomavirus community in healthy persons, defined by metagenomics analysis of human microbiome project shotgun ... Y Ma,R...
Initially, the human reference genome were mapped to the metagenomics sequences data sets using BWA MEM alignment tool. Then read pairs not mapped to the human genome sequences were filtered and extracted their identifiers using Samtools fastx (Galaxy version 1.9 + galaxy1). Then use the ...
Ma, Y. Human papillomavirus community in healthy persons, defined by metagenomics analysis of human microbiome project shotgun sequencing data sets. J. Virol. 88, 4786–4797 (2014). Article Google Scholar Hao, Y. HPViewer: Sensitive and specific genotyping of human papillomavirus in metagenomic ...
Biogeography and individuality shape function in the human skin metagenome. Nature 514, 59–64 (2014). Article CAS PubMed PubMed Central Google Scholar Loman, N.J. et al. A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia...
HUMAN DNANUCLEIC acid isolation methodsPARKINSON'S diseaseHUMAN microbiotaRecent attention has highlighted the importance of oral microbiota in human health and disease, e.g., in Parkinson's disease, notably using shotgun metagenomics. One key aspect for efficient shotgun metagenomic analysis...
In order to improve the understanding of the cyanobacterial communities subsequent to the source water coagulation, this study aims to: 1) investigate the composition structure of the cyanobacteria using shotgun metagenomics sequencing in, in situ mesocosms before and after the coagulation of the ...
Keywords: antibiotic resistance genes;metal resistance genes;shotgun metagenomics;heavy metals
such as 16S or 18S rDNA sequencing. We thus developed a method based on long-read shotgun metagenomics enabling interrogation of alloHSCT patient microbiomes across almost all domains of microbial life (bacteriome, archaeome, mycobiome, non-human/non-fungal eukaryome, and DNA-virome). It comp...