Sentences with phrase «metagenomic sequences from»

Scalable metagenomics alignment research tool (SMART): a scalable, rapid, and complete search heuristic for the classification of metagenomic sequences from complex sequence populations — Aaron Y Lee — BMC Bioinformatics — 2016

Real - time analysis of nanopore - based metagenomic sequencing from orthopaedic device infection

Not exact matches

We analyzed 7.2 terabases of metagenomic data from 243 Tara Oceans samples from 68 locations in epipelagic and mesopelagic waters across the globe to generate an ocean microbial reference gene catalog with > 40 million nonredundant, mostly novel sequences from viruses, prokaryotes, and picoeukaryotes.

But researchers report today that they've figured out how to predict the structures of hundreds of unmapped proteins by gleaning insights from one of the strangest of places: «metagenomics» projects that sequence DNA from broad swaths of microbes in the soils and seas.

The team also carried out a so - called metagenomic analysis, in which the genomes from all organisms in a sample are sequenced collectively; the great majority of genes they found coded for proteins never seen before.

Metagenomics poses many analysis challenges, from errors reading DNA sequences to decoding which sequences come from which of the hundreds of microbial species in a microbiome sample.

In parallel, we use high throughput sequencing methods to obtain both deep phylogenetic rDNA / rRNA tag data and metagenomic and metatranscriptomic functional profiles from size fractions covering the entire plankton community from viruses to fish larvae (Figure 2B and 2C).

«The development of metagenomic sequencing of the total DNA in a microbial sample from the human body has allowed us to estimate the abundance of specific microbes and microbial genes.

The draft genome sequence was assembled with metagenomic data from a patient with periodontitis.

The large volume of sequence data from novel organisms generated by metagenomic projects has triggered the development of specialized databases and tools focused on particular groups of organisms or data types.

Complete assembly of a dengue virus type 3 genome from a recent genotype III clade by metagenomic sequencing of serum

Metagenomics and microbiomics — sequencing - based tallies of microbes sampled from the environment and humans, respectively — have seen an explosion of research and publicity in the last decade.

We designed PhylOTU, the first computational tool for estimating the taxonomic composition of metagenomic samples from short, next - generation sequencing reads.

Metagenomics: Tools and Insights for Analyzing Next - Generation Sequencing Data Derived from Biodiversity Studies — Anastasis Oulas — Bioinform Biol Insights — May 2015

We report unbiased metagenomic detection of chikungunya virus (CHIKV), Ebola virus (EBOV), and hepatitis C virus (HCV) from four human blood samples by MinION nanopore sequencing coupled to a newly developed, web - based pipeline for real - time bioinformatics analysis on a computational server or laptop (MetaPORE).

Using nanopore sequencing, metagenomic detection of viral pathogens directly from clinical samples was performed within an unprecedented < 6 hours sample - to - answer turnaround time and in a timeframe amenable for actionable clinical and public health diagnostics.

An ensemble strategy that significantly improves de novo assembly of microbial genomes from metagenomic next - generation sequencing data.

We report unbiased metagenomic detection of chikungunya virus (CHIKV), Ebola virus (EBOV), and hepatitis C virus (HCV) from four human blood samples by MinION nanopore sequencing coupled to a newly developed, web - based pipeline for real - time bioinformatics analysis on a computational server or la

In contrast, shotgun metagenomics, where all DNA from a sample is extracted and sequenced, provides a culture - independent and explorative alternative to characterize the genetic basis for resistance within microbial communities.

Genome sequencing has become a powerful tool for studying emerging infectious diseases; however, genome sequencing directly from clinical samples without isolation remains challenging for viruses such as Zika, where metagenomic sequencing methods may generate insufficient numbers of viral reads.

Identification of bacterial pathogens and antimicrobial resistance directly from clinical urines by nanopore - based metagenomic sequencing

Finally, nirK sequences were found in the genome of M. frappieri JAM7 and of 34 Methylophaga sp. retrieved from metagenomic studies (Data S3).