Cargando…

Assessment of Metagenomic Assembly Using Simulated Next Generation Sequencing Data

Due to the complexity of the protocols and a limited knowledge of the nature of microbial communities, simulating metagenomic sequences plays an important role in testing the performance of existing tools and data analysis methods with metagenomic data. We developed metagenomic read simulators with...

Descripción completa

Detalles Bibliográficos
Autores principales:	Mende, Daniel R., Waller, Alison S., Sunagawa, Shinichi, Järvelin, Aino I., Chan, Michelle M., Arumugam, Manimozhiyan, Raes, Jeroen, Bork, Peer
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Public Library of Science 2012
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3285633/ https://www.ncbi.nlm.nih.gov/pubmed/22384016 http://dx.doi.org/10.1371/journal.pone.0031386

Ejemplares similares

MOCAT: A Metagenomics Assembly and Gene Prediction Toolkit
por: Kultima, Jens Roat, et al.
Publicado: (2012)

Country-specific antibiotic use practices impact the human gut resistome
por: Forslund, Kristoffer, et al.
Publicado: (2013)

SmashCell: a software framework for the analysis of single-cell amplified genome sequences
por: Harrington, Eoghan D., et al.
Publicado: (2010)

Genomic variation landscape of the human gut microbiome
por: Schloissnig, Siegfried, et al.
Publicado: (2012)

Individuality and temporal stability of the human gut microbiome
por: Sunagawa, Shinichi, et al.
Publicado: (2014)

Prediction and identification of sequences coding for orphan enzymes using genomic and metagenomic neighbours
por: Yamada, Takuji, et al.
Publicado: (2012)

MOCAT2: a metagenomic assembly, annotation and profiling framework
por: Kultima, Jens Roat, et al.
Publicado: (2016)

Inter-individual differences in the gene content of human gut bacterial species
por: Zhu, Ana, et al.
Publicado: (2015)

Prediction of effective genome size in metagenomic samples
por: Raes, Jeroen, et al.
Publicado: (2007)

Toward molecular trait-based ecology through integration of biogeochemical, geographical and metagenomic data
por: Raes, Jeroen, et al.
Publicado: (2011)

metaSNV: A tool for metagenomic strain level analysis
por: Costea, Paul Igor, et al.
Publicado: (2017)

Correction: Assessment of Metagenomic Assembly Using Simulated Next Generation Sequencing Data
Publicado: (2014)

Temporal and technical variability of human gut metagenomes
por: Voigt, Anita Y, et al.
Publicado: (2015)

metaSNV v2: detection of SNVs and subspecies in prokaryotic metagenomes
por: Van Rossum, Thea, et al.
Publicado: (2021)

NeSSM: A Next-Generation Sequencing Simulator for Metagenomics
por: Jia, Ben, et al.
Publicado: (2013)

proGenomes: a resource for consistent functional and taxonomic annotations of prokaryotic genomes
por: Mende, Daniel R., et al.
Publicado: (2017)

Consistent mutational paths predict eukaryotic thermostability
por: van Noort, Vera, et al.
Publicado: (2013)

MIntO: A Modular and Scalable Pipeline For Microbiome Metagenomic and Metatranscriptomic Data Integration
por: Saenz, Carmen, et al.
Publicado: (2022)

Computational eco-systems biology in Tara Oceans: translating data into knowledge
por: Sunagawa, Shinichi, et al.
Publicado: (2015)

Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes
por: Hingamp, Pascal, et al.
Publicado: (2013)

A roadmap for metagenomic enzyme discovery
por: Robinson, Serina L., et al.
Publicado: (2021)

A Nitrile Hydratase in the Eukaryote Monosiga brevicollis
por: Foerstner, Konrad U., et al.
Publicado: (2008)

LotuS: an efficient and user-friendly OTU processing pipeline
por: Hildebrand, Falk, et al.
Publicado: (2014)

Leishmaniasis Diagnosis via Metagenomic Next-Generation Sequencing
por: Chen, Hongbin, et al.
Publicado: (2020)

Application of metagenomic next-generation sequencing in cutaneous tuberculosis
por: Kong, Min, et al.
Publicado: (2022)

Metagenomic Next-Generation Sequencing for Periprosthetic Joint Infections
por: Cretu, Bogdan, et al.
Publicado: (2023)

Universally Distributed Single-Copy Genes Indicate a Constant Rate of Horizontal Transfer
por: Creevey, Christopher J., et al.
Publicado: (2011)

Correction: LotuS: an efficient and user-friendly OTU processing pipeline
por: Hildebrand, Falk, et al.
Publicado: (2014)

High-Resolution Metagenomics of Human Gut Microbiota Generated by Nanopore and Illumina Hybrid Metagenome Assembly
por: Ye, Lianwei, et al.
Publicado: (2022)

Cultivation-independent genomes greatly expand taxonomic-profiling capabilities of mOTUs across various environments
por: Ruscheweyh, Hans-Joachim, et al.
Publicado: (2022)

NGSNGS: next-generation simulator for next-generation sequencing data
por: Henriksen, Rasmus Amund, et al.
Publicado: (2023)

Metagenomic analysis of gut microbial communities from a Central Asian population
por: Kushugulova, Almagul, et al.
Publicado: (2018)

Metagenome-assembled genomes reveal greatly expanded taxonomic and functional diversification of the abundant marine Roseobacter RCA cluster
por: Liu, Yanting, et al.
Publicado: (2023)

Genomic diversity and ecology of human-associated Akkermansia species in the gut microbiome revealed by extensive metagenomic assembly
por: Karcher, Nicolai, et al.
Publicado: (2021)

Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities
por: Acinas, Silvia G., et al.
Publicado: (2021)

Analytical Tools and Databases for Metagenomics in the Next-Generation Sequencing Era
por: Kim, Mincheol, et al.
Publicado: (2013)

Pathogenic Detection by Metagenomic Next-Generation Sequencing in Osteoarticular Infections
por: Huang, Zi-da, et al.
Publicado: (2020)

Metagenomic next-generation sequencing for mixed pulmonary infection diagnosis
por: Wang, Jiahui, et al.
Publicado: (2019)

Emergomyces orientalis Emergomycosis Diagnosed by Metagenomic Next-Generation Sequencing
por: He, Da, et al.
Publicado: (2021)

The Early Diagnosis of Scrub Typhus by Metagenomic Next-Generation Sequencing
por: Liu, Xianghong, et al.
Publicado: (2021)

Cannot write session to /tmp/vufind_sessions/sess_bimi1kdjlglqe3oso0ckjn25m9