MTR: taxonomic annotation of short metagenomic reads using clustering at multiple taxonomic ranks
暂无分享,去创建一个
Elena Marchiori | Gianluigi Folino | Fabio Gori | Mike S. M. Jetten | E. Marchiori | G. Folino | M. Jetten | Fabio Gori
[1] F. Sanger,et al. DNA sequencing with chain-terminating inhibitors. , 1977, Proceedings of the National Academy of Sciences of the United States of America.
[2] John C. Wooley,et al. A Primer on Metagenomics , 2010, PLoS Comput. Biol..
[3] J. Tiedje,et al. Naïve Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy , 2007, Applied and Environmental Microbiology.
[4] Gabriel Valiente,et al. Accurate Taxonomic Assignment of Short Pyrosequencing Reads , 2010, Pacific Symposium on Biocomputing.
[5] Alexander F. Auch,et al. MEGAN analysis of metagenomic data. , 2007, Genome research.
[6] Steven Salzberg,et al. Identifying bacterial genes and endosymbiont DNA with Glimmer , 2007, Bioinform..
[7] J. Parkhill,et al. Comparative genomic structure of prokaryotes. , 2004, Annual review of genetics.
[8] F. Sanger,et al. A Rapid Method for Determining Sequences in DNA by Primed Synthesis with DNA Polymerase , 1989 .
[9] Elena Marchiori,et al. Clustering Metagenome Short Reads Using Weighted Proteins , 2009, EvoBIO.
[10] Daniel J. Blankenberg,et al. A framework for collaborative analysis of ENCODE data: making large-scale analyses biologist-friendly. , 2007, Genome research.
[11] Daniel J. Blankenberg,et al. Galaxy: A Web‐Based Genome Analysis Tool for Experimentalists , 2010, Current protocols in molecular biology.
[12] Alice C McHardy,et al. What's in the mix: phylogenetic classification of metagenome sequence samples. , 2007, Current opinion in microbiology.
[13] P. Bork,et al. A human gut microbial gene catalogue established by metagenomic sequencing , 2010, Nature.
[14] M. Breitbart,et al. Using pyrosequencing to shed light on deep mine microbial ecology , 2006, BMC Genomics.
[15] Rick L. Stevens,et al. The SEED: a peer-to-peer environment for genome annotation , 2004, CACM.
[16] F. Ausubel. Phylogenetic identification and in situ detection of individual microbial cell without cultivation. , 2010 .
[17] R. Knight,et al. The Human Microbiome Project , 2007, Nature.
[18] Sean D. Hooper,et al. Annotation of metagenome short reads using proxygenes , 2008, ECCB.
[19] Alla Lapidus,et al. A Bioinformatician's Guide to Metagenomics , 2008, Microbiology and Molecular Biology Reviews.
[20] Stefan Hougardy,et al. A linear-time approximation algorithm for weighted matchings in graphs , 2005, TALG.
[21] R. Knight,et al. Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers , 2008, Nucleic acids research.
[22] P. Bork,et al. Get the most out of your metagenome: computational analysis of environmental sequence data. , 2007, Current opinion in microbiology.
[23] Vasek Chvátal,et al. A Greedy Heuristic for the Set-Covering Problem , 1979, Math. Oper. Res..
[24] Benjamin J. Raphael,et al. The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families , 2007, PLoS biology.
[25] James R. Knight,et al. Genome sequencing in microfabricated high-density picolitre reactors , 2005, Nature.
[26] Andreas Wilke,et al. phylogenetic and functional analysis of metagenomes , 2022 .
[27] Reuven Bar-Yehuda,et al. A Linear-Time Approximation Algorithm for the Weighted Vertex Cover Problem , 1981, J. Algorithms.
[28] P. Bork,et al. Environments shape the nucleotide composition of genomes , 2005, EMBO reports.
[29] K. Schleifer,et al. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. , 1995, Microbiological reviews.
[30] Jianhua Lin,et al. Divergence measures based on the Shannon entropy , 1991, IEEE Trans. Inf. Theory.
[31] S. Salzberg,et al. Phymm and PhymmBL: Metagenomic Phylogenetic Classification with Interpolated Markov Models , 2009, Nature Methods.
[32] Naryttza N. Diaz,et al. Phylogenetic classification of short environmental DNA fragments , 2008, Nucleic acids research.
[33] Forest Rohwer,et al. Metagenomic analysis of the microbial community associated with the coral Porites astreoides. , 2007, Environmental microbiology.