Results 101 to 110 of about 30,341 (174)

Shotgun and Hi-C Sequencing Datasets for Binning Wheat Rhizosphere Microbiome

Scientific Data
Binning is a crucial process in metagenomics studies, where sequenced reads are combined to form longer contigs and assigned to individual genomes. Conventional methods, such as shotgun binning, rely on similarity measurements and abundance profiles ...
Roshan Regmi, Jonathan Anderson, Lauren Burgess, Hayley Mangelson, Ivan Liachko, Gupta Vadakattu   +5 more
doaj   +1 more source

Bioinformatics strategies for taxonomy independent binning and visualization of sequences in shotgun metagenomics

Computational and Structural Biotechnology Journal, 2017
One of main steps in a study of microbial communities is resolving their composition, diversity and function. In the past, these issues were mostly addressed by the use of amplicon sequencing of a target gene because of reasonable price and easier ...
Karel Sedlar, Kristyna Kupkova, Ivo Provaznik   +2 more
doaj   +1 more source

Evaluating and improving the representation of bacterial contents in long-read metagenome assemblies

Genome Biology
Background In the metagenomic assembly of a microbial community, abundant species are often thought to assemble well given their deeper sequencing coverage. This conjuncture is rarely tested or evaluated in practice.
Xiaowen Feng, Heng Li
doaj   +1 more source

Metagenome-assembled genomes (MAGs) from biofloc microbiota.

We recovered over 500 metagenome-assembled genomes (MAGs) from the floc-associated microbiota of commercial biofloc aquaculture systems. These MAGs were then functionally annotated to understand the metabolic potential.
Rajeev Meora (16466445), Jang-Cheon Cho (8919272), Ilnam Kang (8732103), Ilsuk Jung (16468119)   +3 more
core   +1 more source

Anvi'o files DISTAL MG manual binning

, 2018
Files include:#1: Raw assembly (scaffolds >1,000nt) of the DISTAL metagenome using metaSPAdes v.3.11.0 .#2: Anvi'o v.3 files generated for manual binning of the DISTAL metagenomic assembly using reads recruited from three metagenomes.Metagenomes were ...
tom delmont (3227814)
core   +1 more source

Metagenome-assembled genome (MAG) information from Nome Creek, Alaska soils

, 2019
Information on 54 prokaryotic metagenome-assembled genome (MAG) sequences binned from a co-assembly of 12 soil samples from this wildfire impacted upland Alaskan boreal forest soils.
Neslihan Tas (6191723)
core   +1 more source

Seven hundred and ninety-seven metagenome-assembled genomes from the goat rumen during early life

Scientific Data
The rumen microbiome plays an important role in providing energy and protein to the host. Manipulation of rumen microbiome during early life may have a long-term beneficial effect on the health, growth performance, and feed efficiency of ruminants.
Tao Ma, Yimin Zhuang, Wei Lu, Yan Tu, Qiyu Diao, Xia Fan, Naifeng Zhang   +6 more
doaj   +1 more source

The chromosomal genome sequence of a staghorn coral, Acropora cf. manni (Scleractinia: Acroporidae) [version 1; peer review: 2 approved]

Wellcome Open Research
We present a genome assembly from a colony sample of Acropora cf. manni (staghorn coral; Cnidaria; Anthozoa; Scleractinia; Acroporidae). The assembly contains two haplotypes with total lengths of 459.26 megabases and 489.30 megabases. Most of haplotype 1
Dareon Rios, Hector Torrado, Andrew H Baird, Eerik Aunin, David J Combosch, Victoria McKenna, Graeme Oatley, David R Burdick, Sebastian Metz, Elizabeth Sinclair, Camilla Santos, Haoyu Niu, Michael Paulini, Michael Sweet, Noah Gettle, Rebecca O’Brien   +15 more
doaj   +1 more source

metagenome-atlas/atlas: v2.0.1

, 2019
<p>Changelog:</p> <ul> <li>New API</li> <li>on the fly install of conda environments and databases</li> <li>Updated docs</li> <li>Metagenomic binning with metabat, maxbin, DAS Tool</li> ...
Silas Kieser, Jackson M. Tsuji, Richard Allen White III, Joe Brown, Sean M. Colby, Mattias de Hollander, Chris Overall, Colin Brislawn   +7 more
core   +1 more source

Compact binning for parallel processing of limited-range functions [PDF]

, 2010
Limited-range functions are domain-level optimizations to a class of applications where all input elements contribute to all output elements, based on the distance between two given elements.
Obeid, Nady M.
core