Results 41 to 50 of about 138,246 (299)

metagenome-atlas/atlas: Use python 3.8, ruamel.yaml>17 and panday 1.2

, 2021
ATLAS - Three commands to start analyzing your metagenome ...
Silas Kieser, Jackson M. Tsuji, Richard Allen White III, Christopher Bottoms, Joe Brown, Sean M. Colby, Vladimir Mikryukov, wangzc, Chris Overall, Mattias de Hollander, C. Titus Brown, Colin Brislawn   +11 more
core   +1 more source

High throughput whole rumen metagenome profiling using untargeted massively parallel sequencing

BMC Genetics, 2012
Background Variation of microorganism communities in the rumen of cattle (Bos taurus) is of great interest because of possible links to economically or environmentally important traits, such as feed conversion efficiency or methane emission levels.
Ross Elizabeth M, Moate Peter J, Bath Carolyn R, Davidson Sophie E, Sawbridge Tim I, Guthridge Kathryn M, Cocks Ben G, Hayes Ben J   +7 more
doaj   +1 more source

The Metagenomic Telescope

PLoS ONE, 2014
Next generation sequencing technologies led to the discovery of numerous new microbe species in diverse environmental samples. Some of the new species contain genes never encountered before. Some of these genes encode proteins with novel functions, and some of these genes encode proteins that perform some well-known function in a novel way.
Szalkai, Balázs, Scheer, Ildikó, Nagy, Kinga, G. Vértessy, Beáta, Grolmusz, Vince   +4 more
openaire   +4 more sources

Presence of neutrophil extracellular traps (NETs) in different types of human urinary tract infections (UTI). A pilot study

Frontiers in Immunology
IntroductionActivated polymorphonuclear neutrophils (PMN) release neutrophil extracellular traps (NETs) composed of a web-like DNA core, concomitant with nuclear histones, granular peptides and enzymes.
Lena Schröder Alvarez, Lena Schröder Alvarez, Iván Conejeros, Gabriel Espinosa, Constanza Salinas-Varas, Benjamin Ott, Markus Weigel, Markus Weigel, Can Imirzalioglu, Can Imirzalioglu, Moritz Fritzenwanker, Moritz Fritzenwanker, Anita C. Windhorst, Torsten Hain, Torsten Hain, Anja Taubert, Carlos Hermosilla, Florian Wagenlehner, Florian Wagenlehner   +18 more
doaj   +1 more source

MMINP: A computational framework of microbe-metabolite interactions-based metabolic profiles predictor based on the O2-PLS algorithm

Gut Microbes, 2023
The gut metabolome acts as an intermediary between the gut microbiota and host, and has tremendous diagnostic and therapeutic potential. Several studies have utilized bioinformatic tools to predict metabolites based on the different aspects of the gut ...
Wenli Tang, Huimin Zheng, Shuangbin Xu, Pan Li, Li Zhan, Xiao Luo, Zehan Dai, Qianwen Wang, Guangchuang Yu   +8 more
doaj   +1 more source

A Bioinformatician's Guide to Metagenomics [PDF]

Microbiology and Molecular Biology Reviews, 2008
SUMMARYAs random shotgun metagenomic projects proliferate and become the dominant source of publicly available sequence data, procedures for the best practices in their execution and analysis become increasingly important. Based on our experience at the Joint Genome Institute, we describe the chain of decisions accompanying a metagenomic project from ...
Kunin, V., Copeland, A., Lapidus, A., Mavromatis, K., Hugenholtz, P.   +4 more
openaire   +5 more sources

metagenome-atlas/atlas: With new GTDB v05

, 2020
ATLAS - Three commands to start analysing your metagenome ...
Silas Kieser, Jackson M. Tsuji, Richard Allen White III, Christopher Bottoms, Joe Brown, Sean M. Colby, Chris Overall, Mattias de Hollander, C. Titus Brown, Colin Brislawn   +9 more
core   +1 more source

metagenome-atlas/atlas: Toiminnot

, 2021
This is a major update of metagenome-atlas. It was developed for the 3-day course in Finnland, that's also why it has a finish release name. What is new?
Silas Kieser, Richard Allen White III, Joe Brown, Vladimir Mikryukov, Yan Hui, Jackson M. Tsuji, Christopher Bottoms, Sean M. Colby, wangzc, Chris Overall, Mattias de Hollander, C. Titus Brown, Colin Brislawn   +12 more
core   +1 more source

Mining virulence genes using metagenomics.

PLoS ONE, 2011
When a bacterial genome is compared to the metagenome of an environment it inhabits, most genes recruit at high sequence identity. In free-living bacteria (for instance marine bacteria compared against the ocean metagenome) certain genomic regions are ...
Pedro Belda-Ferre, Raúl Cabrera-Rubio, Andrés Moya, Alex Mira   +3 more
doaj   +1 more source

metagenome-atlas/atlas: V2.0.0

, 2019
<p>ATLAS - Three commands to start analysing your metagenome data</p ...
Silas Kieser, Joe Brown
core   +1 more source