标题
Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible
作者
关键词
-
出版物
PLoS Computational Biology
Volume 10, Issue 4, Pages e1003531
出版商
Public Library of Science (PLoS)
发表日期
2014-04-04
DOI
10.1371/journal.pcbi.1003531
参考文献
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。- The Split-Apply-Combine Strategy for Data Analysis
- (2015) Hadley Wickham Journal of Statistical Software
- Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size
- (2013) Danni Yu et al. BIOINFORMATICS
- TCC: an R package for comparing tag count data with robust normalization strategies
- (2013) Jianqiang Sun et al. BMC BIOINFORMATICS
- A comparison of methods for differential expression analysis of RNA-seq data
- (2013) Charlotte Soneson et al. BMC BIOINFORMATICS
- High throughput sequencing methods and analysis for microbiome research
- (2013) Julia M. Di Bella et al. JOURNAL OF MICROBIOLOGICAL METHODS
- Computational meta'omics for microbial community studies
- (2013) N. Segata et al. Molecular Systems Biology
- Differential abundance analysis for microbial marker-gene surveys
- (2013) Joseph N Paulson et al. NATURE METHODS
- phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
- (2013) Paul J. McMurdie et al. PLoS One
- Reduced Incidence of Prevotella and Other Fermenters in Intestinal Microflora of Autistic Children
- (2013) Dae-Wook Kang et al. PLoS One
- A Guide to Enterotypes across the Human Body: Meta-Analysis of Microbial Community Structures in Human Microbiome Datasets
- (2013) Omry Koren et al. PLoS Computational Biology
- DFI: gene feature discovery in RNA-seq experiments from multiple sources
- (2012) Hatice Ozer et al. BMC GENOMICS
- Diversity, distribution and sources of bacteria in residential kitchens
- (2012) Gilberto E. Flores et al. ENVIRONMENTAL MICROBIOLOGY
- Architectural design influences the diversity and structure of the built environment microbiome
- (2012) Steven W Kembel et al. ISME Journal
- The expanding scope of DNA sequencing
- (2012) Jay Shendure et al. NATURE BIOTECHNOLOGY
- A comprehensive comparison of RNA-Seq-based transcriptome analysis from reads to differential gene expression and cross-comparison with microarrays: a case study in Saccharomyces cerevisiae
- (2012) Intawat Nookaew et al. NUCLEIC ACIDS RESEARCH
- Composition of the adult digestive tract bacterial microbiome based on seven mouth surfaces, tonsils, throat and stool samples
- (2012) Nicola Segata et al. GENOME BIOLOGY
- Classification and clustering of sequencing data using a Poisson model
- (2011) Daniela M. Witten Annals of Applied Statistics
- Reproducible Research in Computational Science
- (2011) R. D. Peng SCIENCE
- Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes
- (2011) G. D. Wu et al. SCIENCE
- An invitation to reproducible computational research
- (2010) D. L. Donoho BIOSTATISTICS
- Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments
- (2010) James H Bullard et al. BMC BIOINFORMATICS
- baySeq: Empirical Bayesian methods for identifying differential expression in sequence count data
- (2010) Thomas J Hardcastle et al. BMC BIOINFORMATICS
- UniFrac: an effective distance metric for microbial community comparison
- (2010) Catherine Lozupone et al. ISME Journal
- QIIME allows analysis of high-throughput community sequencing data
- (2010) J Gregory Caporaso et al. NATURE METHODS
- The Effects of Circumcision on the Penis Microbiome
- (2010) Lance B. Price et al. PLoS One
- Disordered Microbial Communities in the Upper Respiratory Tract of Cigarette Smokers
- (2010) Emily S. Charlson et al. PLoS One
- Independent filtering increases detection power for high-throughput experiments
- (2010) R. Bourgon et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
- (2010) J. G. Caporaso et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Differential expression analysis for sequence count data
- (2010) Simon Anders et al. GENOME BIOLOGY
- Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
- (2009) P. D. Schloss et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
- (2009) M. D. Robinson et al. BIOINFORMATICS
- The seasonal structure of microbial communities in the Western English Channel
- (2009) Jack A. Gilbert et al. ENVIRONMENTAL MICROBIOLOGY
- Fast UniFrac: facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and PhyloChip data
- (2009) Micah Hamady et al. ISME Journal
- Statistical Methods for Detecting Differentially Abundant Features in Clinical Metagenomic Samples
- (2009) James Robert White et al. PLoS Computational Biology
- RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays
- (2008) J. C. Marioni et al. GENOME RESEARCH
- Evaluating different approaches that test whether microbial communities have the same structure
- (2008) Patrick D Schloss ISME Journal
- Next-generation DNA sequencing
- (2008) Jay Shendure et al. NATURE BIOTECHNOLOGY
- Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex
- (2008) Micah Hamady et al. NATURE METHODS
- Mapping and quantifying mammalian transcriptomes by RNA-Seq
- (2008) Ali Mortazavi et al. NATURE METHODS
- Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers
- (2008) Z. Liu et al. NUCLEIC ACIDS RESEARCH
- Exploring Microbial Diversity and Taxonomy Using SSU rRNA Hypervariable Tag Sequencing
- (2008) Susan M. Huse et al. PLoS Genetics
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationFind the ideal target journal for your manuscript
Explore over 38,000 international journals covering a vast array of academic fields.
Search