Lista de obras -

Adaptation of commensal proliferating Escherichia coli to the intestinal tract of young children with cystic fibrosis

artículo científico publicado en 2018

An Alignment-Free "Metapeptide" Strategy for Metaproteomic Characterization of Microbiome Samples Using Shotgun Metagenomic Sequencing

artículo científico publicado en 2016

An algorithm for designing minimal microbial communities with desired metabolic capacities

scientific article published on 26 February 2016

An end to endless forms: epistasis, phenotype distribution bias, and nonuniform evolution

artículo científico publicado en 2008

BURRITO: An Interactive Multi-Omic Tool for Visualizing Taxa-Function Relationships in Microbiome Data.

artículo científico publicado en 2018

Broker genes in human disease

artículo científico publicado en 2010

Characterising the taxonomic composition of children and livestock gut microbiomes and of environmental samples and the potential role for household-level microbiome sharing in western Kenya

article

Circuitry and dynamics of human transcription factor regulatory networks

artículo científico publicado en 2012

Comparative analysis of functional metagenomic annotation and the mappability of short reads

artículo científico publicado en 2014

Competitive lottery-based assembly of selected clades in the human gut microbiome

artículo científico publicado en 2018

Computational systems biology and in silico modeling of the human microbiome

artículo científico

Conservation of trans-acting circuitry during mammalian regulatory evolution

artículo científico publicado en 2014

Cultural niche construction in a metapopulation

artículo científico publicado en 2006

Decoupling Environment-Dependent and Independent Genetic Robustness across Bacterial Species

artículo científico publicado en 2010

Direct evolution of genetic robustness in microRNA.

artículo científico publicado en 2006

Emergent biosynthetic capacity in simple microbial communities

artículo científico publicado en 2014

Escherichia coli dysbiosis correlates with gastrointestinal dysfunction in children with cystic fibrosis

artículo científico publicado en 2013

Evolution of learning in fluctuating environments: when selection favors both social and exploratory individual learning.

artículo científico publicado en 2007

Evolutionary assembly patterns of prokaryotic genomes

artículo científico publicado en 2016

Extensive strain-level copy-number variation across human gut microbiome species

artículo científico publicado en 2015

Gene loss rate: a probabilistic measure for the conservation of eukaryotic genes

artículo científico publicado en 2006

Getting Personal About Nutrition

artículo científico publicado en 2016

High-resolution characterization of the human microbiome

artículo científico publicado en 2016

Hsp90 promotes kinase evolution

artículo científico publicado en 2014

Human and Extracellular DNA Depletion for Metagenomic Analysis of Complex Clinical Infection Samples Yields Optimized Viable Microbiome Profiles

Large-scale reconstruction and phylogenetic analysis of metabolic environments

artículo científico publicado en 2008

MUSiCC: a marker genes based framework for metagenomic normalization and accurate profiling of gene abundances in the microbiome

artículo científico publicado en 2015

Mapping the inner workings of the microbiome: genomic- and metagenomic-based study of metabolism and metabolic interactions in the human microbiome

artículo científico publicado en 2014

Metabolic Model-Based Integration of Microbiome Taxonomic and Metabolomic Profiles Elucidates Mechanistic Links between Ecological and Metabolic Variation

artículo científico publicado en 2016

Metabolic model-based analysis of the emergence of bacterial cross-feeding via extensive gene loss.

artículo científico publicado en 2018

Metabolic modeling of species interaction in the human microbiome elucidates community-level assembly rules

artículo científico publicado en 2013

Metabolic-network-driven analysis of bacterial ecological strategies

artículo científico publicado en 2009

Metagenomic evidence for taxonomic dysbiosis and functional imbalance in the gastrointestinal tracts of children with cystic fibrosis

artículo científico publicado en 2016

Metagenomic systems biology and metabolic modeling of the human microbiome: from species composition to community assembly rules

artículo científico publicado en 2014

Metagenomic systems biology of the human gut microbiome reveals topological shifts associated with obesity and inflammatory bowel disease

artículo científico publicado en 2011

Microbiome sharing between children, livestock and household surfaces in western Kenya

artículo científico publicado en 2017

Most networks in Wagner's model are cycling

artículo científico publicado en 2012

Multiplex targeted sequencing identifies recurrently mutated genes in autism spectrum disorders

artículo científico publicado en 2012

NetCmpt: a network-based tool for calculating the metabolic competition between bacterial species

artículo científico publicado en 2012

NetCooperate: a network-based tool for inferring host-microbe and microbe-microbe cooperation

artículo científico publicado en 2015

NetSeed: a network-based reverse-ecology tool for calculating the metabolic interface of an organism with its environment ⬇️

artículo científico publicado el 4 de enero de 2012

Reconstructing the genomic content of microbiome taxa through shotgun metagenomic deconvolution

artículo científico publicado en 2013

Reverse Ecology: from systems to environments and back

artículo científico publicado en 2012

Revised computational metagenomic processing uncovers hidden and biologically meaningful functional variation in the human microbiome

artículo científico publicado en 2017

Similarly strong purifying selection acts on human disease genes of all evolutionary ages

artículo científico publicado en 2009

Social and individual learning of helping in humans and other species

artículo científico publicado en 2008

Sporadic autism exomes reveal a highly interconnected protein network of de novo mutations

artículo científico publicado en 2012

Systematic Characterization and Analysis of the Taxonomic Drivers of Functional Shifts in the Human Microbiome

artículo científico publicado en 2017

Taxa-function robustness in microbial communities.

artículo científico publicado en 2018

The Landscape of Type VI Secretion across Human Gut Microbiomes Reveals Its Role in Community Composition

artículo científico publicado en 2017

The Skin Microbiome of the Neotropical Frog Craugastor fitzingeri: Inferring Potential Bacterial-Host-Pathogen Interactions From Metagenomic Data.

artículo científico publicado en 2018

The discovery of integrated gene networks for autism and related disorders

artículo científico publicado en 2014

The evolution of modularity in bacterial metabolic networks.

artículo científico publicado en 2008

The ketogenic diet influences taxonomic and functional composition of the gut microbiota in children with severe epilepsy

article

Topological signatures of species interactions in metabolic networks

artículo científico publicado en 2009

Towards a predictive systems-level model of the human microbiome: progress, challenges, and opportunities

artículo científico publicado en 2013

Where next for microbiome research?

artículo científico publicado en 2015

Lista de obras de

Adaptation of commensal proliferating Escherichia coli to the intestinal tract of young children with cystic fibrosis

An Alignment-Free "Metapeptide" Strategy for Metaproteomic Characterization of Microbiome Samples Using Shotgun Metagenomic Sequencing

An algorithm for designing minimal microbial communities with desired metabolic capacities

An end to endless forms: epistasis, phenotype distribution bias, and nonuniform evolution

BURRITO: An Interactive Multi-Omic Tool for Visualizing Taxa-Function Relationships in Microbiome Data.

Broker genes in human disease

Characterising the taxonomic composition of children and livestock gut microbiomes and of environmental samples and the potential role for household-level microbiome sharing in western Kenya

Circuitry and dynamics of human transcription factor regulatory networks

Comparative analysis of functional metagenomic annotation and the mappability of short reads

Competitive lottery-based assembly of selected clades in the human gut microbiome

Computational systems biology and in silico modeling of the human microbiome

Conservation of trans-acting circuitry during mammalian regulatory evolution

Cultural niche construction in a metapopulation

Decoupling Environment-Dependent and Independent Genetic Robustness across Bacterial Species

Direct evolution of genetic robustness in microRNA.

Emergent biosynthetic capacity in simple microbial communities

Escherichia coli dysbiosis correlates with gastrointestinal dysfunction in children with cystic fibrosis

Evolution of learning in fluctuating environments: when selection favors both social and exploratory individual learning.

Evolutionary assembly patterns of prokaryotic genomes

Extensive strain-level copy-number variation across human gut microbiome species

Gene loss rate: a probabilistic measure for the conservation of eukaryotic genes

Getting Personal About Nutrition

High-resolution characterization of the human microbiome

Hsp90 promotes kinase evolution

Human and Extracellular DNA Depletion for Metagenomic Analysis of Complex Clinical Infection Samples Yields Optimized Viable Microbiome Profiles

Large-scale reconstruction and phylogenetic analysis of metabolic environments

MUSiCC: a marker genes based framework for metagenomic normalization and accurate profiling of gene abundances in the microbiome

Mapping the inner workings of the microbiome: genomic- and metagenomic-based study of metabolism and metabolic interactions in the human microbiome

Metabolic Model-Based Integration of Microbiome Taxonomic and Metabolomic Profiles Elucidates Mechanistic Links between Ecological and Metabolic Variation

Metabolic model-based analysis of the emergence of bacterial cross-feeding via extensive gene loss.

Metabolic modeling of species interaction in the human microbiome elucidates community-level assembly rules

Metabolic-network-driven analysis of bacterial ecological strategies

Metagenomic evidence for taxonomic dysbiosis and functional imbalance in the gastrointestinal tracts of children with cystic fibrosis

Metagenomic systems biology and metabolic modeling of the human microbiome: from species composition to community assembly rules

Metagenomic systems biology of the human gut microbiome reveals topological shifts associated with obesity and inflammatory bowel disease

Microbiome sharing between children, livestock and household surfaces in western Kenya

Most networks in Wagner's model are cycling

Multiplex targeted sequencing identifies recurrently mutated genes in autism spectrum disorders

NetCmpt: a network-based tool for calculating the metabolic competition between bacterial species

NetCooperate: a network-based tool for inferring host-microbe and microbe-microbe cooperation

NetSeed: a network-based reverse-ecology tool for calculating the metabolic interface of an organism with its environment ⬇️

Reconstructing the genomic content of microbiome taxa through shotgun metagenomic deconvolution

Reverse Ecology: from systems to environments and back

Revised computational metagenomic processing uncovers hidden and biologically meaningful functional variation in the human microbiome

Similarly strong purifying selection acts on human disease genes of all evolutionary ages

Social and individual learning of helping in humans and other species

Sporadic autism exomes reveal a highly interconnected protein network of de novo mutations

Systematic Characterization and Analysis of the Taxonomic Drivers of Functional Shifts in the Human Microbiome

Taxa-function robustness in microbial communities.

The Landscape of Type VI Secretion across Human Gut Microbiomes Reveals Its Role in Community Composition

The Skin Microbiome of the Neotropical Frog Craugastor fitzingeri: Inferring Potential Bacterial-Host-Pathogen Interactions From Metagenomic Data.

The discovery of integrated gene networks for autism and related disorders

The evolution of modularity in bacterial metabolic networks.

The ketogenic diet influences taxonomic and functional composition of the gut microbiota in children with severe epilepsy

Topological signatures of species interactions in metabolic networks

Towards a predictive systems-level model of the human microbiome: progress, challenges, and opportunities

Where next for microbiome research?