Metagenomic microbial community profiling using unique clade-specific marker genes
暂无分享,去创建一个
[1] E. Myers,et al. Basic local alignment search tool. , 1990, Journal of molecular biology.
[2] 김삼묘,et al. “Bioinformatics” 특집을 내면서 , 2000 .
[3] Edward F. DeLong,et al. Microbial community genomics in the ocean , 2005, Nature Reviews Microbiology.
[4] R. Daniel. The metagenomics of soil , 2005, Nature Reviews Microbiology.
[5] J. Marrazzo,et al. Molecular identification of bacteria associated with bacterial vaginosis. , 2005, The New England journal of medicine.
[6] B. Snel,et al. Toward Automatic Reconstruction of a Highly Resolved Tree of Life , 2006, Science.
[7] BMC Bioinformatics , 2005 .
[8] I. Rigoutsos,et al. Accurate phylogenetic classification of variable-length DNA fragments , 2007, Nature Methods.
[9] A. Salamov,et al. Use of simulated data sets to evaluate the fidelity of metagenomic processing methods , 2007, Nature Methods.
[10] Alexander F. Auch,et al. MEGAN analysis of metagenomic data. , 2007, Genome research.
[11] Gail L. Rosen,et al. Metagenome Fragment Classification Using N-Mer Frequency Profiles , 2008, Adv. Bioinformatics.
[12]
R. Durbin,et al.
Mapping Quality Scores Mapping Short Dna Sequencing Reads and Calling Variants Using P ,
2022
.
[13]
J. Eisen,et al.
A simple, fast, and accurate method of phylogenomic inference
,
2008,
Genome Biology.
[14]
Tatiana A. Tatusova,et al.
NCBI Reference Sequences: current status, policy and new initiatives
,
2008,
Nucleic Acids Res..
[15]
R. Rosenfeld.
Nature
,
2009,
Otolaryngology--head and neck surgery : official journal of American Academy of Otolaryngology-Head and Neck Surgery.
[16]
Martin Hartmann,et al.
Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities
,
2009,
Applied and Environmental Microbiology.
[17]
James R. Cole,et al.
The Ribosomal Database Project: improved alignments and new tools for rRNA analysis
,
2008,
Nucleic Acids Res..
[18]
S. Salzberg,et al.
Phymm and PhymmBL: Metagenomic Phylogenetic Classification with Interpolated Markov Models
,
2009,
Nature Methods.
[19]
B. Roe,et al.
A core gut microbiome in obese and lean twins
,
2008,
Nature.
[20]
P. Gajer,et al.
Vaginal microbiome of reproductive-age women
,
2010,
Proceedings of the National Academy of Sciences.
[21]
Steven H. Hinrichs,et al.
RAIphy: Phylogenetic classification of metagenomics samples using iterative refinement of relative abundance index profiles
,
2011,
BMC Bioinformatics.
[22]
Wendy S. Garrett,et al.
Bifidobacterium animalis subsp. lactis fermented milk product reduces inflammation by altering a niche for colitogenic microbes
,
2010,
Proceedings of the National Academy of Sciences.
[23]
P. Bork,et al.
A human gut microbial gene catalogue established by metagenomic sequencing
,
2010,
Nature.
[24]
Robert C. Edgar,et al.
BIOINFORMATICS APPLICATIONS NOTE
,
2001
.
[25]
I-Min A. Chen,et al.
The integrated microbial genomes system: an expanding comparative analysis resource
,
2009,
Nucleic Acids Res..
[26]
Susumu Goto,et al.
KEGG for representation and analysis of molecular networks involving diseases and drugs
,
2009,
Nucleic Acids Res..
[27]
D. Ussery,et al.
Genomic comparisons of Brucella spp. and closely related bacteria using base compositional and proteome based methods
,
2010,
BMC Evolutionary Biology.
[28]
Alexandros Stamatakis,et al.
Aligning short reads to reference alignments and trees
,
2011,
Bioinform..
[29]
Robert G. Beiko,et al.
Classifying short genomic fragments from novel lineages using composition and homology
,
2011,
BMC Bioinformatics.
[30]
Gail L. Rosen,et al.
NBC: the Naïve Bayes Classification tool webserver for taxonomic classification of metagenomic reads
,
2010,
Bioinform..
[31]
Curtis Huttenhower,et al.
Toward an Efficient Method of Identifying Core Genes for Evolutionary and Functional Microbial Phylogenies
,
2011,
PloS one.
[32]
J. Stoye,et al.
Taxonomic classification of metagenomic shotgun sequences with CARMA3
,
2011,
Nucleic acids research.
[33]
Elena Marchiori,et al.
MTR: taxonomic annotation of short metagenomic reads using clustering at multiple taxonomic ranks
,
2010,
Bioinform..
[34]
S. Schuster,et al.
Integrative analysis of environmental sequences using MEGAN4.
,
2011,
Genome research.
[35]
S. Salzberg,et al.
PhymmBL expanded: confidence scores, custom databases, parallelization and more
,
2011,
Nature Methods.
[36]
P. Bork,et al.
Enterotypes of the human gut microbiome
,
2011,
Nature.
[37]
Siu-Ming Yiu,et al.
A robust and accurate binning algorithm for metagenomic sequences with arbitrary species abundance ratio
,
2011,
Bioinform..
[38]
T. Scheffer,et al.
Taxonomic metagenome sequence assignment with structured output models
,
2011,
Nature Methods.
[39]
Katherine H. Huang,et al.
A framework for human microbiome research
,
2012,
Nature.
[40]
E. Delong,et al.
Microbial metatranscriptomics in a permanent marine oxygen minimum zone.
,
2012,
Environmental microbiology.