scholarly article | Q13442814 |
P50 | author | Alejandro Sanchez-Flores | Q46215565 |
Alejandra Escobar-Zepeda | Q89983670 | ||
P2093 | author name string | Arturo Vera-Ponce de León | |
P2860 | cites work | A Mathematical Theory of Communication | Q724029 |
Metagenomic analysis of the microbial community in kefir grains | Q46903346 | ||
A user's guide to quantitative and comparative analysis of metagenomic datasets | Q46991392 | ||
Viable but nonrecoverable stage of Salmonella enteritidis in aquatic systems | Q50208985 | ||
Massively parallel rRNA gene sequencing exacerbates the potential for biased community diversity comparisons due to variable library sizes. | Q50511992 | ||
The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases. | Q51141864 | ||
Are biologists in 'future shock'? Symbiosis integrates biology across domains. | Q51678944 | ||
Solexa Ltd. | Q53639385 | ||
An ORFome assembly approach to metagenomics sequences analysis | Q84317225 | ||
Viable but non-culturable Vibrio cholerae O1 revert to a cultivable state in the human intestine | Q87081108 | ||
Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences | Q21092859 | ||
A simple, fast, and accurate method of phylogenomic inference | Q21184110 | ||
Metagenomics - a guide from sampling to data analysis | Q21195892 | ||
The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes | Q21284200 | ||
Toward Automatic Reconstruction of a Highly Resolved Tree of Life | Q22065877 | ||
DNA sequencing with chain-terminating inhibitors | Q22066207 | ||
Robert Koch and the ‘golden age’ of bacteriology | Q22252186 | ||
phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data | Q24288698 | ||
Genome sequencing in microfabricated high-density picolitre reactors | Q24544260 | ||
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs | Q24545170 | ||
KEGG: Kyoto Encyclopedia of Genes and Genomes | Q24548371 | ||
Phylogenetic structure of the prokaryotic domain: The primary kingdoms | Q24564821 | ||
QIIME allows analysis of high-throughput community sequencing data | Q24616873 | ||
Gene prediction with Glimmer for metagenomic sequences augmented by classification and clustering | Q24618283 | ||
Ab initio gene identification in metagenomic sequences | Q24620886 | ||
Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi | Q24630304 | ||
Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities | Q24647611 | ||
Fast and accurate short read alignment with Burrows-Wheeler transform | Q24653853 | ||
Pseudogene.org: a comprehensive database and comparison platform for pseudogene annotation | Q24675776 | ||
Characterization of individual polynucleotide molecules using a membrane channel | Q24681325 | ||
TETRA: a web-service and a stand-alone program for the analysis and comparison of tetranucleotide usage patterns in DNA sequences | Q24796998 | ||
Shiny-phyloseq: Web application for interactive microbiome analysis with provenance tracking. | Q34880531 | ||
A two-stage statistical procedure for feature selection and comparison in functional analysis of metagenomes. | Q34880619 | ||
Microbial community analysis using MEGAN. | Q34995696 | ||
Strengths and limitations of 16S rRNA gene amplicon sequencing in revealing temporal microbial community dynamics. | Q35142841 | ||
Amplicon-based metagenomic analysis of mixed fungal samples using proton release amplicon sequencing | Q35146649 | ||
Systematic design of 18S rRNA gene primers for determining eukaryotic diversity in microbial consortia | Q35155204 | ||
Evaluation of a hybrid approach using UBLAST and BLASTX for metagenomic sequences annotation of specific functional genes | Q35368117 | ||
Formation of nonculturable Vibrio vulnificus cells and its relationship to the starvation state | Q35711174 | ||
Tangential flow filtration and preliminary phylogenetic analysis of marine picoplankton | Q35741819 | ||
MetaVelvet: an extension of Velvet assembler to de novo metagenome assembly from short sequence reads | Q36368703 | ||
Estimating terrestrial biodiversity through extrapolation | Q36727976 | ||
Divergence and redundancy of 16S rRNA sequences in genomes with multiple rrn operons. | Q37424795 | ||
Environmental microbiology through the lens of high-throughput DNA sequencing: synopsis of current platforms and bioinformatics approaches | Q38031015 | ||
A practical guide to sequencing genomes and transcriptomes. | Q38168605 | ||
Alignment-Annotator web server: rendering and annotating sequence alignments | Q38391764 | ||
Microbial phylogenetic profiling with the Pacific Biosciences sequencing platform | Q38578772 | ||
De novo assembly and genotyping of variants using colored de Bruijn graphs | Q40856330 | ||
ProViDE: A software tool for accurate estimation of viral diversity in metagenomic samples | Q42722498 | ||
BactPepDB: a database of predicted peptides from a exhaustive survey of complete prokaryote genomes | Q42759577 | ||
The automatic annotation of bacterial genomes | Q42810528 | ||
Advances in computational analysis of metagenome sequences. | Q43620486 | ||
How close is close: 16S rRNA sequence identity may not be sufficient to guarantee species identity | Q43731813 | ||
Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences | Q43972647 | ||
SOrt-ITEMS: Sequence orthology based approach for improved taxonomic estimation of metagenomic sequences | Q44883483 | ||
ShotgunFunctionalizeR: an R-package for functional comparison of metagenomes | Q45717944 | ||
Comprehensive analysis of pseudogenes in prokaryotes: widespread gene decay and failure of putative horizontally transferred genes | Q24801650 | ||
Computational meta'omics for microbial community studies | Q26825114 | ||
Variations in metabolic pathways create challenges for automated metabolic reconstructions: Examples from the tetrahydrofolate synthesis pathway | Q26830669 | ||
Bioinformatic approaches for functional annotation and pathway inference in metagenomics data | Q27002569 | ||
An introduction to the analysis of shotgun metagenomic data | Q27028042 | ||
DiScRIBinATE: a rapid method for accurate taxonomic classification of metagenomic sequences | Q27496472 | ||
Fast gapped-read alignment with Bowtie 2 | Q27860699 | ||
IMG/M: the integrated metagenome data management and comparative analysis system | Q28253050 | ||
Ab initio protein structure assembly using continuous structure fragments and optimized knowledge-based force field | Q28261756 | ||
A parsimony approach to biological pathway reconstruction/inference for genomes and metagenomes | Q28475856 | ||
Phylogenetic classification of short environmental DNA fragments | Q28754706 | ||
The Eukaryotic Tree of Life from a Global Phylogenomic Perspective | Q29026552 | ||
Measurement of Diversity | Q29303177 | ||
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences | Q29547172 | ||
Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB | Q29547254 | ||
UniFrac: a new phylogenetic method for comparing microbial communities | Q29547435 | ||
Accelerated Profile HMM Searches | Q29547576 | ||
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy | Q29547619 | ||
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools | Q29547623 | ||
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms | Q29614454 | ||
Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences | Q29615050 | ||
Quality control and preprocessing of metagenomic datasets | Q29615829 | ||
An integrated semiconductor device enabling non-optical genome sequencing | Q29617149 | ||
A diversity of beta diversities: straightening up a concept gone awry. Part 1. Defining beta diversity as a function of alpha and gamma diversity | Q30054430 | ||
The I-TASSER Suite: protein structure and function prediction. | Q30370293 | ||
Template-based protein structure modeling using the RaptorX web server. | Q30419445 | ||
Phylogenomic analysis of bacterial and archaeal sequences with AMPHORA2. | Q30455097 | ||
Meta-QC-Chain: comprehensive and fast quality control method for metagenomic data | Q30752200 | ||
MetaCluster-TA: taxonomic annotation for metagenomic data based on assembly-assisted binning | Q30763172 | ||
Parallel-META 2.0: enhanced metagenomic data analysis with functional annotation, high performance computing and advanced visualization | Q30770115 | ||
The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing | Q30833097 | ||
Direct comparisons of Illumina vs. Roche 454 sequencing technologies on the same microbial community DNA sample | Q31048918 | ||
Isolation of antibiotics turbomycin a and B from a metagenomic library of soil microbial DNA | Q31105604 | ||
Gene prediction in metagenomic fragments based on the SVM algorithm. | Q31118752 | ||
Gene identification and protein classification in microbial metagenomic sequence data via incremental clustering | Q31152170 | ||
Novel natural products from soil DNA libraries in a streptomycete host | Q31805166 | ||
An application of statistics to comparative metagenomics | Q33237080 | ||
Abundance-based similarity indices and their estimation when there are unseen species in samples | Q33254449 | ||
Metagenomics: read length matters | Q33314518 | ||
Analysis and comparison of very large metagenomes with fast clustering and functional annotation | Q33513330 | ||
Metagenomic sequencing of an in vitro-simulated microbial community | Q33564344 | ||
Differential abundance analysis for microbial marker-gene surveys | Q33566352 | ||
Ray Meta: scalable de novo metagenome assembly and profiling. | Q33751206 | ||
MetaPath: identifying differentially abundant metabolic pathways in metagenomic datasets | Q33893480 | ||
Snapshot of the eukaryotic gene expression in muskoxen rumen--a metatranscriptomic approach | Q33927033 | ||
Metagenomic pyrosequencing and microbial identification | Q33944054 | ||
MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm | Q34030850 | ||
A beginner's guide to eukaryotic genome annotation | Q34031529 | ||
Molecular biological access to the chemistry of unknown soil microbes: a new frontier for natural products | Q34067905 | ||
Comparative analysis of functional metagenomic annotation and the mappability of short reads | Q34078749 | ||
Use of the gram stain in microbiology | Q34085238 | ||
Next generation sequencing and bioinformatic bottlenecks: the current state of metagenomic data analysis. | Q34095481 | ||
NGS QC Toolkit: a toolkit for quality control of next generation sequencing data | Q34152647 | ||
Microbial metagenomics: beyond the genome | Q34165228 | ||
Measurement of in situ activities of nonphotosynthetic microorganisms in aquatic and terrestrial habitats | Q34194521 | ||
IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth | Q34229322 | ||
Horizontal transfer of segments of the 16S rRNA genes between species of the Streptococcus anginosus group | Q34231453 | ||
Variable copy number, intra-genomic heterogeneities and lateral transfers of the 16S rRNA gene in Pseudomonas | Q34251198 | ||
Understanding microbial community diversity metrics derived from metagenomes: performance evaluation using simulated data sets | Q34254812 | ||
Dinucleotide relative abundance extremes: a genomic signature | Q34289038 | ||
FragGeneScan: predicting genes in short and error-prone reads | Q34298246 | ||
Tapping into microbial diversity. | Q34308289 | ||
Analyses of the microbial diversity across the human microbiome | Q34311671 | ||
Microbial 16S rRNA Ion Tag and community metagenome sequencing using the Ion Torrent (PGM) Platform | Q34360421 | ||
The function of our microbiota: who is out there and what do they do? | Q34392557 | ||
Current opportunities and challenges in microbial metagenome analysis--a bioinformatic perspective | Q34410918 | ||
MOCAT: a metagenomics assembly and gene prediction toolkit | Q34452175 | ||
Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing | Q34497700 | ||
Waiting for the human intestinal Eukaryotome | Q34585227 | ||
Robust estimation of microbial diversity in theory and in practice. | Q34585241 | ||
Accurate phylogenetic classification of variable-length DNA fragments | Q34593023 | ||
P4510 | describes a project that uses | phyloseq | Q106407822 |
P407 | language of work or name | English | Q1860 |
P921 | main subject | bioinformatics | Q128570 |
DNA sequencing | Q380546 | ||
metagenomics | Q903778 | ||
P304 | page(s) | 348 | |
P577 | publication date | 2015-01-01 | |
P1433 | published in | Frontiers in Genetics | Q2499875 |
P1476 | title | The Road to Metagenomics: From Microbiology to DNA Sequencing Technologies and Bioinformatics | |
P478 | volume | 6 |
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