Differential abundance analysis for microbial marker-gene surveys View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2013-09-29

AUTHORS

Joseph N Paulson, O Colin Stine, Héctor Corrada Bravo, Mihai Pop

ABSTRACT

The metagenomeSeq tool robustly detects the differential abundance of microbes in marker-based microbial surveys by tackling the problems of data sparsity and undersampling common to these data sets.

PAGES

1200-1202

References to SciGraph publications

  • 2008-11-30. A core gut microbiome in obese and lean twins in NATURE
  • 2012-09-26. A metagenome-wide association study of gut microbiota in type 2 diabetes in NATURE
  • 2010-10-27. Differential expression analysis for sequence count data in GENOME BIOLOGY
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  • 2012-06-13. A framework for human microbiome research in NATURE
  • 2011-06-24. Metagenomic biomarker discovery and explanation in GENOME BIOLOGY
  • 2011-11-16. ReCount: A multi-experiment resource of analysis-ready RNA-seq gene count datasets in BMC BIOINFORMATICS
  • 2012-06-14. Composition of the adult digestive tract bacterial microbiome based on seven mouth surfaces, tonsils, throat and stool samples in GENOME BIOLOGY
  • 2010-03-24. Alignment and clustering of phylogenetic markers - implications for microbial diversity studies in BMC BIOINFORMATICS
  • 2011-06-30. DNACLUST: accurate and efficient clustering of phylogenetic marker genes in BMC BIOINFORMATICS
  • 2010-04-11. QIIME allows analysis of high-throughput community sequencing data in NATURE METHODS
  • 2010-02-18. Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments in BMC BIOINFORMATICS
  • 2010-08-11. Cloud-scale RNA-sequencing differential expression analysis with Myrna in GENOME BIOLOGY
  • 2012-09-26. Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment in GENOME BIOLOGY
  • 2012-10-08. Gut microbiome as a marker for diabetes in NATURE REVIEWS MICROBIOLOGY
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nmeth.2658

    DOI

    http://dx.doi.org/10.1038/nmeth.2658

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1002139060

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/24076764


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