Generation and analysis of a mouse intestinal metatranscriptome through Illumina based RNA-sequencing (Q34257026)

31 July 2017

Generation and analysis of a mouse intestinal metatranscriptome through Illumina based RNA-sequencing (English)

1 reference

31 July 2017

1 reference

Janet Markle

5

0 references

Charles E Robertson

object named as

Charles E Robertson

3

0 references

John Parkinson

object named as

John Parkinson

11

0 references

Jayne S. Danska

10

object named as

Jayne S Danska

1 reference

31 July 2017

2

Daniel N Frank

1 reference

31 July 2017

Xuejian Xiong

1

1 reference

31 July 2017

Stacy S Hung

4

1 reference

31 July 2017

Angelo J Canty

6

1 reference

31 July 2017

Kathy D McCoy

7

1 reference

31 July 2017

Andrew J Macpherson

8

1 reference

31 July 2017

Philippe Poussier

9

1 reference

31 July 2017

language of work or name

English

0 references

publication date

27 April 2012

1 reference

31 July 2017

1 reference

31 July 2017

7

1 reference

31 July 2017

e36009

1 reference

31 July 2017

4

1 reference

Creative Commons Attribution 4.0 International

31 July 2017

start time

27 April 2012

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

Metatranscriptomics and pyrosequencing facilitate discovery of potential viral natural enemies of the invasive Caribbean crazy ant, Nylanderia pubens

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Metatranscriptomics of the marine sponge Geodia barretti: tackling phylogeny and function of its microbial community

28 July 2018

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Comparative metatranscriptomics identifies molecular bases for the physiological responses of phytoplankton to varying iron availability

28 July 2018

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Integrative analysis of environmental sequences using MEGAN4

28 July 2018

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Genome-wide RNA-seq analysis of human and mouse platelet transcriptomes.

28 July 2018

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Community transcriptomics reveals universal patterns of protein sequence conservation in natural microbial communities

28 July 2018

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Functional analysis of metagenomes and metatranscriptomes using SEED and KEGG

28 July 2018

1 reference

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The taxonomic and functional diversity of microbes at a temperate coastal site: a 'multi-omic' study of seasonal and diel temporal variation

28 July 2018

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RNA sequencing shows no dosage compensation of the active X-chromosome

28 July 2018

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Quantitative analysis of a deeply sequenced marine microbial metatranscriptome

28 July 2018

1 reference

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Gut microbial gene expression in mother-fed and formula-fed piglets

28 July 2018

1 reference

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Toward defining the autoimmune microbiome for type 1 diabetes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Metatranscriptome analysis of the human fecal microbiota reveals subject-specific expression profiles, with genes encoding proteins involved in carbohydrate metabolism being dominantly expressed

28 July 2018

1 reference

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DETECT--a density estimation tool for enzyme classification and its application to Plasmodium falciparum.

28 July 2018

1 reference

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Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins

28 July 2018

1 reference

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A human gut microbial gene catalogue established by metagenomic sequencing

28 July 2018

1 reference

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The Gene Ontology in 2010: extensions and refinements

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

The Modular Organization of Protein Interactions in Escherichia coli

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

A method for isolating and analyzing human mRNA from newborn stool

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

The conservation and evolutionary modularity of metabolism

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Fast and accurate short read alignment with Burrows-Wheeler transform

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Metatranscriptomics reveals unique microbial small RNAs in the ocean's water column

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Ki67 index, HER2 status, and prognosis of patients with luminal B breast cancer

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

The All-Species Living Tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Mapping and quantifying mammalian transcriptomes by RNA-Seq

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Velvet: algorithms for de novo short read assembly using de Bruijn graphs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

iPath: interactive exploration of biochemical pathways and networks

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Culture independent analysis of ileal mucosa reveals a selective increase in invasive Escherichia coli of novel phylogeny relative to depletion of Clostridiales in Crohn's disease involving the ileum

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Gastrointestinal microbiology enters the metagenomics era.

28 July 2018

1 reference

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The global landscape of sequence diversity

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases

28 July 2018

1 reference

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A proteome-wide protein interaction map for Campylobacter jejuni

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Inferring genome-wide functional linkages in E. coli by combining improved genome context methods: comparison with high-throughput experimental data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Use of axenic animals in studying the adaptation of mammals to their commensal intestinal microbiota

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

STRING 7--recent developments in the integration and prediction of protein interactions

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

The outcomes of pathway database computations depend on pathway ontology

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Metagenomic analysis of the human distal gut microbiome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

28 July 2018

The microbial pan-genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome"

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Mucispirillum schaedleri gen. nov., sp. nov., a spiral-shaped bacterium colonizing the mucus layer of the gastrointestinal tract of laboratory rodents.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Metagenomic analyses of an uncultured viral community from human feces

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

The COG database: an updated version includes eukaryotes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Biotechnological prospects from metagenomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Automatic clustering of orthologs and in-paralogs from pairwise species comparisons

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

The COG database: a tool for genome-scale analysis of protein functions and evolution

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Phylogeny of the defined murine microbiota: altered Schaedler flora

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

A genomic perspective on protein families

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Metatranscriptome analysis for insight into whole-ecosystem gene expression during spontaneous wheat and spelt sourdough fermentations

28 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036009

Metatranscriptome analysis of lactic acid bacteria during kimchi fermentation with genome-probing microarrays

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036009

Microbial community gene expression in ocean surface waters

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036009

Microbial metatranscriptomics in a permanent marine oxygen minimum zone.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036009

Accurate whole human genome sequencing using reversible terminator chemistry

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036009

From genomics to chemical genomics: new developments in KEGG

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036009

Metagenomic approaches for defining the pathogenesis of inflammatory bowel diseases

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036009

Interaction network containing conserved and essential protein complexes in Escherichia coli

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036009

The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0036009

Analyzing gene expression from marine microbial communities using environmental transcriptomics

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3338770

Comparative genomics of centrality and essentiality in three eukaryotic protein-interaction networks

28 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22558305

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0036009

1 reference

31 July 2017

0 references

1 reference

31 July 2017

1 reference