相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center
Alice R. Wattam et al.
NUCLEIC ACIDS RESEARCH (2017)
IMG/M: integrated genome and metagenome comparative data analysis system
I-Min A. Chen et al.
NUCLEIC ACIDS RESEARCH (2017)
MicroPattern: a web-based tool for microbe set enrichment analysis and disease similarity calculation based on a list of microbes
Wei Ma et al.
SCIENTIFIC REPORTS (2017)
Normalization and microbial differential abundance strategies depend upon data characteristics
Sophie Weiss et al.
MICROBIOME (2017)
The MG-RAST metagenomics database and portal in 2015
Andreas Wilke et al.
NUCLEIC ACIDS RESEARCH (2016)
EBI metagenomics in 2016-an expanding and evolving resource for the analysis and archiving of metagenomic data
Alex Mitchell et al.
NUCLEIC ACIDS RESEARCH (2016)
Compositional analysis: a valid approach to analyze microbiome high-throughput sequencing data
Gregory B. Gloor et al.
CANADIAN JOURNAL OF MICROBIOLOGY (2016)
miRNet - dissecting miRNA-target interactions and functional associations through network-based visual analysis
Yannan Fan et al.
NUCLEIC ACIDS RESEARCH (2016)
Large-scale benchmarking reveals false discoveries and count transformation sensitivity in 16S rRNA gene amplicon data analysis methods used in microbiome studies
Jonathan Thorsen et al.
MICROBIOME (2016)
Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data
Kathrin P. Asshauer et al.
BIOINFORMATICS (2015)
NetworkAnalyst for statistical, visual and network-based meta-analysis of gene expression data
Jianguo Xia et al.
NATURE PROTOCOLS (2015)
MetaboAnalyst 3.0-making metabolomics more meaningful
Jianguo Xia et al.
NUCLEIC ACIDS RESEARCH (2015)
Microbiome, Metagenomics, and High-Dimensional Compositional Data Analysis
Hongzhe Li
ANNUAL REVIEW OF STATISTICS AND ITS APPLICATION, VOL 2 (2015)
Shiny-phyloseq: Web application for interactive microbiome analysis with provenance tracking
Paul J. McMurdie et al.
BIOINFORMATICS (2015)
The Genomes OnLine Database (GOLD) v.5: a metadata management system based on a four level (meta)genome project classification
T. B. K. Reddy et al.
NUCLEIC ACIDS RESEARCH (2015)
STAMP: statistical analysis of taxonomic and functional profiles
Donovan H. Parks et al.
BIOINFORMATICS (2014)
VAMPS: a website for visualization and analysis of microbial population structures
Susan M. Huse et al.
BMC BIOINFORMATICS (2014)
The Intestinal Metabolome: An Intersection Between Microbiota and Host
Luke K. Ursell et al.
GASTROENTEROLOGY (2014)
An integrated catalog of reference genes in the human gut microbiome
Junhua Li et al.
NATURE BIOTECHNOLOGY (2014)
Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible
Paul J. McMurdie et al.
PLOS COMPUTATIONAL BIOLOGY (2014)
The dynamics of a family's gut microbiota reveal variations on a theme
Patrick D. Schloss et al.
MICROBIOME (2014)
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Michael I. Love et al.
GENOME BIOLOGY (2014)
Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences
Morgan G. I. Langille et al.
NATURE BIOTECHNOLOGY (2013)
Differential abundance analysis for microbial marker-gene surveys
Joseph N. Paulson et al.
NATURE METHODS (2013)
INMEX-a web-based tool for integrative meta-analysis of expression data
Jianguo Xia et al.
NUCLEIC ACIDS RESEARCH (2013)
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
Paul J. McMurdie et al.
PLOS ONE (2013)
Integrative analysis of the microbiome and metabolome of the human intestinal mucosal surface reveals exquisite inter-relationships
Ian H. McHardy et al.
MICROBIOME (2013)
Host Remodeling of the Gut Microbiome and Metabolic Changes during Pregnancy
Omry Koren et al.
CELL (2012)
Structure, function and diversity of the healthy human microbiome
Curtis Huttenhower et al.
NATURE (2012)
METAGENassist: a comprehensive web server for comparative metagenomics
David Arndt et al.
NUCLEIC ACIDS RESEARCH (2012)
The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome
Daniel McDonald et al.
GIGASCIENCE (2012)
Metagenomic biomarker discovery and explanation
Nicola Segata et al.
GENOME BIOLOGY (2011)
Supervised classification of human microbiota
Dan Knights et al.
FEMS MICROBIOLOGY REVIEWS (2011)
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
Mark D. Robinson et al.
BIOINFORMATICS (2010)
A human gut microbial gene catalogue established by metagenomic sequencing
Junjie Qin et al.
NATURE (2010)
QIIME allows analysis of high-throughput community sequencing data
J. Gregory Caporaso et al.
NATURE METHODS (2010)
Enrichment Map: A Network-Based Method for Gene-Set Enrichment Visualization and Interpretation
Daniele Merico et al.
PLOS ONE (2010)
Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
Patrick D. Schloss et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2009)
Metabolomics analysis reveals large effects of gut microflora on mammalian blood metabolites
William R. Wikoff et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)
Univariate statistical analysis of environmental (compositional) data: Problems and possibilities
Peter Filzmoser et al.
SCIENCE OF THE TOTAL ENVIRONMENT (2009)
Statistical Methods for Detecting Differentially Abundant Features in Clinical Metagenomic Samples
James Robert White et al.
PLOS COMPUTATIONAL BIOLOGY (2009)
The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes
F. Meyer et al.
BMC BIOINFORMATICS (2008)
MEGAN analysis of metagenomic data
Daniel H. Huson et al.
GENOME RESEARCH (2007)