Piphillin predicts metagenomic composition and dynamics from DADA2-corrected 16S rDNA sequences
Published 2020 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Piphillin predicts metagenomic composition and dynamics from DADA2-corrected 16S rDNA sequences
Authors
Keywords
-
Journal
BMC GENOMICS
Volume 21, Issue 1, Pages -
Publisher
Springer Science and Business Media LLC
Online
2020-01-17
DOI
10.1186/s12864-019-6427-1
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Amphibian chytridiomycosis outbreak dynamics are linked with host skin bacterial community structure
- (2018) Kieran A. Bates et al. Nature Communications
- Phosphorus-mineralizing Communities Reflect Nutrient-Rich Characteristics in Japanese Arable Andisols
- (2018) Kazumori Mise et al. MICROBES AND ENVIRONMENTS
- EPA-ng: Massively Parallel Evolutionary Placement of Genetic Sequences
- (2018) Pierre Barbera et al. SYSTEMATIC BIOLOGY
- Exact sequence variants should replace operational taxonomic units in marker-gene data analysis
- (2017) Benjamin J Callahan et al. ISME Journal
- Determinants of Reduced Genetic Capacity for Butyrate Synthesis by the Gut Microbiome in Crohn’s Disease and Ulcerative Colitis
- (2017) Emilio J Laserna-Mendieta et al. Journal of Crohns & Colitis
- Microbiota studies in the bile duct strongly suggest a role for Helicobacter pylori in extrahepatic cholangiocarcinoma
- (2016) F. Avilés-Jiménez et al. CLINICAL MICROBIOLOGY AND INFECTION
- DADA2: High-resolution sample inference from Illumina amplicon data
- (2016) Benjamin J Callahan et al. NATURE METHODS
- KEGG: new perspectives on genomes, pathways, diseases and drugs
- (2016) Minoru Kanehisa et al. NUCLEIC ACIDS RESEARCH
- Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data: Fig. 1.
- (2015) Kathrin P. Aßhauer et al. BIOINFORMATICS
- Deriving accurate microbiota profiles from human samples with low bacterial content through post-sequencing processing of Illumina MiSeq data
- (2015) Jake Jervis-Bardy et al. Microbiome
- Trimmomatic: a flexible trimmer for Illumina sequence data
- (2014) Anthony M. Bolger et al. BIOINFORMATICS
- Fast and sensitive protein alignment using DIAMOND
- (2014) Benjamin Buchfink et al. NATURE METHODS
- Changes in Abundance of Oral Microbiota Associated with Oral Cancer
- (2014) Brian L. Schmidt et al. PLoS One
- Kraken: ultrafast metagenomic sequence classification using exact alignments
- (2014) Derrick E Wood et al. GENOME BIOLOGY
- Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences
- (2013) Morgan G I Langille et al. NATURE BIOTECHNOLOGY
- UPARSE: highly accurate OTU sequences from microbial amplicon reads
- (2013) Robert C Edgar NATURE METHODS
- The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases
- (2013) Ron Caspi et al. NUCLEIC ACIDS RESEARCH
- SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data
- (2012) Evguenia Kopylova et al. BIOINFORMATICS
- Phylogenetic stratigraphy in the Guerrero Negro hypersaline microbial mat
- (2012) J Kirk Harris et al. ISME Journal
- Unlocking the potential of metagenomics through replicated experimental design
- (2012) Rob Knight et al. NATURE BIOTECHNOLOGY
- Fast gapped-read alignment with Bowtie 2
- (2012) Ben Langmead et al. NATURE METHODS
- Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies
- (2012) Anna Klindworth et al. NUCLEIC ACIDS RESEARCH
- Aligning short reads to reference alignments and trees
- (2011) Simon A. Berger et al. BIOINFORMATICS
- Induction of Intestinal Th17 Cells by Segmented Filamentous Bacteria
- (2009) Ivaylo I. Ivanov et al. CELL
- Millimeter-scale genetic gradients and community-level molecular convergence in a hypersaline microbial mat
- (2008) Victor Kunin et al. Molecular Systems Biology
- A core gut microbiome in obese and lean twins
- (2008) Peter J. Turnbaugh et al. NATURE
Become a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get StartedAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started