Integrative analysis of environmental sequences using MEGAN4 (Q24604814)

1

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Suparna Mitra

2

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Hans-Joachim Ruscheweyh

3

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Nico Weber

4

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Stephan C Schuster

QIIME allows analysis of high-throughput community sequencing data

5

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language of work or name

English

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publication date

September 2011

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published in

Genome Research

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volume

21

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issue

9

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page(s)

1552-60

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cites work

1 reference

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A human gut microbial gene catalogue established by metagenomic sequencing

7 April 2017

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Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities

7 April 2017

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SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB

7 April 2017

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The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific

7 April 2017

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CAMERA: a community resource for metagenomics

7 April 2017

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MEGAN analysis of metagenomic data

7 April 2017

1 reference

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The integrated microbial genomes (IMG) system

7 April 2017

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The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes

7 April 2017

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7 April 2017

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TETRA: a web-service and a stand-alone program for the analysis and comparison of tetranucleotide usage patterns in DNA sequences

7 April 2017

1 reference

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KEGG: kyoto encyclopedia of genes and genomes

7 April 2017

1 reference

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Basic local alignment search tool

7 April 2017

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An obesity-associated gut microbiome with increased capacity for energy harvest

7 April 2017

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The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

7 April 2017

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The human microbiome project

7 April 2017

1 reference

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Comparative metagenomics of microbial communities

7 April 2017

1 reference

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A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

7 April 2017

1 reference

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Metagenomics to paleogenomics: large-scale sequencing of mammoth DNA

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness

7 April 2017

1 reference

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NBC: the Naive Bayes Classification tool webserver for taxonomic classification of metagenomic reads

7 April 2017

1 reference

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pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

UniFrac: an effective distance metric for microbial community comparison

27 September 2017

1 reference

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MLTreeMap--accurate Maximum Likelihood placement of environmental DNA sequences into taxonomic and functional reference phylogenies

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

WebCARMA: a web application for the functional and taxonomic classification of unassembled metagenomic reads

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

Windshield splatter analysis with the Galaxy metagenomic pipeline

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

Detection of large numbers of novel sequences in the metatranscriptomes of complex marine microbial communities

27 September 2017

1 reference

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Simultaneous assessment of soil microbial community structure and function through analysis of the meta-transcriptome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

Binning sequences using very sparse labels within a metagenome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

Accurate phylogenetic classification of variable-length DNA fragments

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

Molecular biological access to the chemistry of unknown soil microbes: a new frontier for natural products

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

Using the metagenomics RAST server (MG-RAST) for analyzing shotgun metagenomes.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transduction

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

Phymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3166839

28 November 2018

Identifiers

DOI

10.1101/GR.120618.111

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142564

142564

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1 reference

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