Lista de obras - Christopher Quince - Dominio Público Uruguay

A comparison of rpoB and 16S rRNA as markers in pyrosequencing studies of bacterial diversity

artículo científico publicado en 2012

A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling

artículo científico publicado en 2016

A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia coli O104:H4.

artículo científico publicado en 2013

Absorption and fixation times for neutral and quasi-neutral populations with density dependence

scientific article published on 18 September 2008

Accurate determination of microbial diversity from 454 pyrosequencing data

artículo científico publicado en 2009

Anvi'o: an advanced analysis and visualization platform for 'omics data

artículo científico publicado en 2015

Assessment of the influence of intrinsic environmental and geographical factors on the bacterial ecology of pit latrines.

artículo científico publicado en 2016

Benchmarking of viral haplotype reconstruction programmes: an overview of the capacities and limitations of currently available programmes

artículo científico

Binning metagenomic contigs by coverage and composition

artículo científico publicado en 2014

Bioaugmentation Mitigates the Impact of Estrogen on Coliform-Grazing Protozoa in Slow Sand Filters

artículo científico publicado en 2016

Bioreactor Scalability: Laboratory-Scale Bioreactor Design Influences Performance, Ecology, and Community Physiology in Expanded Granular Sludge Bed Bioreactors

artículo científico publicado en 2017

Biphasic growth in fish I: theoretical foundations

artículo científico publicado en 2008

Biphasic growth in fish II: empirical assessment

artículo científico publicado en 2008

Challenges in microbial ecology: building predictive understanding of community function and dynamics ⬇️

artículo científico

Comparative metagenomic and rRNA microbial diversity characterization using archaeal and bacterial synthetic communities

artículo científico publicado en 2013

Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software.

artículo científico publicado en 2017

DESMAN: a new tool for de novo extraction of strains from metagenomes.

artículo científico publicado en 2017

Decreased gut microbiota diversity, delayed Bacteroidetes colonisation and reduced Th1 responses in infants delivered by caesarean section

artículo científico publicado en 2013

Dirichlet multinomial mixtures: generative models for microbial metagenomics

artículo científico publicado en 2012

Diversity and dynamics of rare and of resident bacterial populations in coastal sands

artículo científico publicado en 2011

Dynamics of envelope evolution in clade C SHIV-infected pig-tailed macaques during disease progression analyzed by ultra-deep pyrosequencing

artículo científico publicado en 2012

Enterotypes in the landscape of gut microbial community composition.

artículo científico publicado en 2017

Environmental microbiology through the lens of high-throughput DNA sequencing: synopsis of current platforms and bioinformatics approaches

artículo científico

Evolution of the plankton paleome in the Black Sea from the Deglacial to Anthropocene

artículo científico publicado en 2013

Extensive Modulation of the Fecal Metagenome in Children With Crohn's Disease During Exclusive Enteral Nutrition

artículo científico publicado en 2015

Extinction times and moment closure in the stochastic logistic process

artículo científico publicado en 2004

Fixation in haploid populations exhibiting density dependence I: The non-neutral case

artículo científico publicado en 2006

Fixation in haploid populations exhibiting density dependence II: the quasi-neutral case

artículo científico publicado en 2007

Fluvial network organization imprints on microbial co-occurrence networks

artículo científico publicado en 2014

Headwaters are critical reservoirs of microbial diversity for fluvial networks.

artículo científico publicado en 2013

Hepatitis C virus transmission bottlenecks analyzed by deep sequencing.

artículo científico publicado en 2010

Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data

artículo científico publicado en 2016

Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform

artículo científico publicado en 2015

Linking Microbial Community Structure and Function During the Acidified Anaerobic Digestion of Grass

artículo científico publicado en 2018

Loss of microbial diversity in soils is coincident with reductions in some specialized functions.

artículo científico publicado en 2014

Low-strength ultrasonication positively affects methanogenic granules toward higher AD performance: Implications from microbial community shift

artículo científico publicado en 2016

Machine learning based prediction of functional capabilities in metagenomically assembled microbial genomes

scholarly article published 25 April 2018

Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project

artículo científico publicado en 2010

Metabarcoding and metabolome analyses of copepod grazing reveal feeding preference and linkage to metabolite classes in dynamic microbial plankton communities

artículo científico publicado en 2016

Multivariate Cutoff Level Analysis (MultiCoLA) of large community data sets

artículo científico publicado en 2010

Niche specialization of terrestrial archaeal ammonia oxidizers

artículo científico publicado en 2011

Nitrogen-fixing populations of Planctomycetes and Proteobacteria are abundant in surface ocean metagenomes

artículo científico publicado en 2018

Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins

artículo científico publicado en 2010

Pan-genome Analysis of Ancient and Modern Salmonella enterica Demonstrates Genomic Stability of the Invasive Para C Lineage for Millennia

artículo científico publicado en 2018

PhyloPythiaS+: a self-training method for the rapid reconstruction of low-ranking taxonomic bins from metagenomes

artículo científico publicado en 2016

Phylogenetic congruence and ecological coherence in terrestrial Thaumarchaeota

artículo científico publicado en 2015

Rare but active taxa contribute to community dynamics of benthic biofilms in glacier-fed streams

artículo científico publicado en 2014

Removing noise from pyrosequenced amplicons

artículo científico publicado en 2011

Replicating the microbial community and water quality performance of full-scale slow sand filters in laboratory-scale filters.

artículo científico publicado en 2014

Response of Archaeal and Bacterial Soil Communities to Changes Associated with Outdoor Cattle Overwintering.

artículo científico publicado en 2015

Response to Kaakoush et al.

artículo científico publicado en 2016

Revealing higher than expected meiofaunal diversity in Antarctic sediments: a metabarcoding approach

artículo científico publicado en 2017

Role of Faecalibacterium prausnitzii in Crohn's Disease: friend, foe, or does not really matter?

artículo científico publicado en 2014

Sample richness and genetic diversity as drivers of chimera formation in nSSU metagenetic analyses

artículo científico publicado en 2012

Seqenv: linking sequences to environments through text mining

artículo científico publicado en 2016

Seqenv: linking sequences to environments through text mining

Shotgun metagenomics, from sampling to analysis

artículo científico publicado en 2017

Some consequences of demographic stochasticity in population genetics

artículo científico publicado en 2010

Stable-isotope probing and metagenomics reveal predation by protozoa drives E. coli removal in slow sand filters.

artículo científico publicado en 2015

Swarm v2: highly-scalable and high-resolution amplicon clustering

artículo científico publicado en 2015

Swarm: robust and fast clustering method for amplicon-based studies

artículo científico publicado en 2014

Temperature, inocula and substrate: Contrasting electroactive consortia, diversity and performance in microbial fuel cells.

artículo científico publicado en 2017

The distinct features of microbial 'dysbiosis' of Crohn's disease do not occur to the same extent in their unaffected, genetically-linked kindred

artículo científico publicado en 2017

The effect of DNA extraction methodology on gut microbiota research applications.

artículo científico publicado en 2016

The impact of Crohn's disease genes on healthy human gut microbiota: a pilot study

artículo científico publicado en 2013

The impact of mortality on predator population size and stability in systems with stage-structured prey

artículo científico publicado en 2005

The impact of nonlinear functional responses on the long-term evolution of food web structure

artículo científico publicado en 2004

The rational exploration of microbial diversity

artículo científico publicado en 2008

The relationship between microbial community evenness and function in slow sand filters.

artículo científico publicado en 2015

Towards standardization of the description and publication of next-generation sequencing datasets of fungal communities

artículo científico publicado en 2011

Treatment of Active Crohn’s Disease With an Ordinary Food-based Diet That Replicates Exclusive Enteral Nutrition

artículo científico publicado en 2018

UCHIME improves sensitivity and speed of chimera detection ⬇️

artículo científico publicado el 23 de junio de 2011

V-REVCOMP: automated high-throughput detection of reverse complementary 16S rRNA gene sequences in large environmental and taxonomic datasets

artículo científico publicado en 2011

VSEARCH: a versatile open source tool for metagenomics

artículo científico publicado en 2016

Lista de obras de Christopher Quince

A comparison of rpoB and 16S rRNA as markers in pyrosequencing studies of bacterial diversity

A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling

A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia coli O104:H4.

Absorption and fixation times for neutral and quasi-neutral populations with density dependence

Accurate determination of microbial diversity from 454 pyrosequencing data

Anvi'o: an advanced analysis and visualization platform for 'omics data

Assessment of the influence of intrinsic environmental and geographical factors on the bacterial ecology of pit latrines.

Benchmarking of viral haplotype reconstruction programmes: an overview of the capacities and limitations of currently available programmes

Binning metagenomic contigs by coverage and composition

Bioaugmentation Mitigates the Impact of Estrogen on Coliform-Grazing Protozoa in Slow Sand Filters

Bioreactor Scalability: Laboratory-Scale Bioreactor Design Influences Performance, Ecology, and Community Physiology in Expanded Granular Sludge Bed Bioreactors

Biphasic growth in fish I: theoretical foundations

Biphasic growth in fish II: empirical assessment

Challenges in microbial ecology: building predictive understanding of community function and dynamics ⬇️

Comparative metagenomic and rRNA microbial diversity characterization using archaeal and bacterial synthetic communities

Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software.

DESMAN: a new tool for de novo extraction of strains from metagenomes.

Decreased gut microbiota diversity, delayed Bacteroidetes colonisation and reduced Th1 responses in infants delivered by caesarean section

Dirichlet multinomial mixtures: generative models for microbial metagenomics

Diversity and dynamics of rare and of resident bacterial populations in coastal sands

Dynamics of envelope evolution in clade C SHIV-infected pig-tailed macaques during disease progression analyzed by ultra-deep pyrosequencing

Enterotypes in the landscape of gut microbial community composition.

Environmental microbiology through the lens of high-throughput DNA sequencing: synopsis of current platforms and bioinformatics approaches

Evolution of the plankton paleome in the Black Sea from the Deglacial to Anthropocene

Extensive Modulation of the Fecal Metagenome in Children With Crohn's Disease During Exclusive Enteral Nutrition

Extinction times and moment closure in the stochastic logistic process

Fixation in haploid populations exhibiting density dependence I: The non-neutral case

Fixation in haploid populations exhibiting density dependence II: the quasi-neutral case

Fluvial network organization imprints on microbial co-occurrence networks

Headwaters are critical reservoirs of microbial diversity for fluvial networks.

Hepatitis C virus transmission bottlenecks analyzed by deep sequencing.

Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data

Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform

Linking Microbial Community Structure and Function During the Acidified Anaerobic Digestion of Grass

Loss of microbial diversity in soils is coincident with reductions in some specialized functions.

Low-strength ultrasonication positively affects methanogenic granules toward higher AD performance: Implications from microbial community shift

Machine learning based prediction of functional capabilities in metagenomically assembled microbial genomes

Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project

Metabarcoding and metabolome analyses of copepod grazing reveal feeding preference and linkage to metabolite classes in dynamic microbial plankton communities

Multivariate Cutoff Level Analysis (MultiCoLA) of large community data sets

Niche specialization of terrestrial archaeal ammonia oxidizers

Nitrogen-fixing populations of Planctomycetes and Proteobacteria are abundant in surface ocean metagenomes

Organismal, genetic, and transcriptional variation in the deeply sequenced gut microbiomes of identical twins

Pan-genome Analysis of Ancient and Modern Salmonella enterica Demonstrates Genomic Stability of the Invasive Para C Lineage for Millennia

PhyloPythiaS+: a self-training method for the rapid reconstruction of low-ranking taxonomic bins from metagenomes

Phylogenetic congruence and ecological coherence in terrestrial Thaumarchaeota

Rare but active taxa contribute to community dynamics of benthic biofilms in glacier-fed streams

Removing noise from pyrosequenced amplicons

Replicating the microbial community and water quality performance of full-scale slow sand filters in laboratory-scale filters.

Response of Archaeal and Bacterial Soil Communities to Changes Associated with Outdoor Cattle Overwintering.

Response to Kaakoush et al.

Revealing higher than expected meiofaunal diversity in Antarctic sediments: a metabarcoding approach

Role of Faecalibacterium prausnitzii in Crohn's Disease: friend, foe, or does not really matter?

Sample richness and genetic diversity as drivers of chimera formation in nSSU metagenetic analyses

Seqenv: linking sequences to environments through text mining

Seqenv: linking sequences to environments through text mining

Shotgun metagenomics, from sampling to analysis

Some consequences of demographic stochasticity in population genetics

Stable-isotope probing and metagenomics reveal predation by protozoa drives E. coli removal in slow sand filters.

Swarm v2: highly-scalable and high-resolution amplicon clustering

Swarm: robust and fast clustering method for amplicon-based studies

Temperature, inocula and substrate: Contrasting electroactive consortia, diversity and performance in microbial fuel cells.

The distinct features of microbial 'dysbiosis' of Crohn's disease do not occur to the same extent in their unaffected, genetically-linked kindred

The effect of DNA extraction methodology on gut microbiota research applications.

The impact of Crohn's disease genes on healthy human gut microbiota: a pilot study

The impact of mortality on predator population size and stability in systems with stage-structured prey

The impact of nonlinear functional responses on the long-term evolution of food web structure

The rational exploration of microbial diversity

The relationship between microbial community evenness and function in slow sand filters.

Towards standardization of the description and publication of next-generation sequencing datasets of fungal communities

Treatment of Active Crohn’s Disease With an Ordinary Food-based Diet That Replicates Exclusive Enteral Nutrition

UCHIME improves sensitivity and speed of chimera detection ⬇️

V-REVCOMP: automated high-throughput detection of reverse complementary 16S rRNA gene sequences in large environmental and taxonomic datasets

VSEARCH: a versatile open source tool for metagenomics