Lista de obras - Jaime Huerta-Cepas - Dominio Público Uruguay

A Critical Review on the Use of Support Values in Tree Viewers and Bioinformatics Toolkits.

artículo científico

Advances and Applications in the Quest for Orthologs

scientific article published on 01 October 2019

An integrated approach for genome annotation of the eukaryotic thermophile Chaetomium thermophilum

artículo científico publicado en 2014

Antibiotics-induced monodominance of a novel gut bacterial order

artículo científico publicado en 2019

ArthropodaCyc: a CycADS powered collection of BioCyc databases to analyse and compare metabolism of arthropods

artículo científico

Assigning duplication events to relative temporal scales in genome-wide studies

artículo científico publicado en 2010

Automatic Prediction of the Genetic Code

Comparative transcriptomics of early dipteran development

artículo científico publicado en 2013

CycADS: an annotation database system to ease the development and update of BioCyc databases

artículo científico publicado en 2011

Disentangling the impact of environmental and phylogenetic constraints on prokaryotic within-species diversity

artículo científico publicado en 2020

Durable coexistence of donor and recipient strains after fecal microbiota transplantation.

artículo científico publicado en 2016

ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data.

artículo científico publicado en 2016

ETE: a python Environment for Tree Exploration

artículo científico publicado en 2010

Evidence for short-time divergence and long-time conservation of tissue-specific expression after gene duplication

artículo científico publicado en 2011

Evidence for systems-level molecular mechanisms of tumorigenesis

artículo científico publicado en 2007

Fast genome-wide functional annotation through orthology assignment by eggNOG-mapper

artículo científico

Fast genome-wide functional annotation through orthology assignment by eggNOG-mapper

article

Fine-scale evolution: genomic, phenotypic and ecological differentiation in two coexisting Salinibacter ruber strains

artículo científico publicado en 2010

From genes to functional classes in the study of biological systems

artículo científico publicado en 2007

Function, evolution, and structure of J-domain proteins

scientific article published on 26 November 2018

GEPAS, a web-based tool for microarray data analysis and interpretation

artículo científico publicado en 2008

Gearing up to handle the mosaic nature of life in the quest for orthologs

artículo científico publicado en 2017

Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome

artículo científico publicado en 2019

Interoperability with Moby 1.0--it's better than sharing your toothbrush!

artículo científico publicado en 2008

MOCAT2: a metagenomic assembly, annotation and profiling framework

artículo científico publicado en 2016

MetaPhOrs: orthology and paralogy predictions from multiple phylogenetic evidence using a consistency-based confidence score.

artículo científico publicado en 2010

Metabolic anchor reactions for robust biorefining

artículo científico publicado en 2017

Microbial abundance, activity and population genomic profiling with mOTUs2

artículo científico publicado en 2019

NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language

NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language.

artículo científico publicado en 2019

Neuroprotection elicited by P2Y13 receptors against genotoxic stress by inducing DUSP2 expression and MAPK signaling recovery.

artículo científico publicado en 2014

Next station in microarray data analysis: GEPAS.

artículo científico publicado en 2006

PTMcode v2: a resource for functional associations of post-translational modifications within and between proteins

artículo científico publicado en 2014

PeroxisomeDB: a database for the peroxisomal proteome, functional genomics and disease

artículo científico publicado en 2006

Phylemon 2.0: a suite of web-tools for molecular evolution, phylogenetics, phylogenomics and hypotheses testing

artículo científico publicado en 2011

Phylemon: a suite of web tools for molecular evolution, phylogenetics and phylogenomics

artículo científico publicado en 2007

PhylomeDB v3.0: an expanding repository of genome-wide collections of trees, alignments and phylogeny-based orthology and paralogy predictions

artículo científico publicado en 2011

PhylomeDB v4: zooming into the plurality of evolutionary histories of a genome

artículo científico publicado en 2013

PhylomeDB: a database for genome-wide collections of gene phylogenies

artículo científico publicado en 2008

Prokaryotic ancestry and gene fusion of a dual localized peroxiredoxin in malaria parasites

artículo científico publicado en 2015

Quest for Orthologs Entails Quest for Tree of Life: In Search of the Gene Stream

artículo científico publicado en 2015

STRING v10: protein-protein interaction networks, integrated over the tree of life

artículo científico publicado en 2015

STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets

artículo científico publicado en 2018

Standardized benchmarking in the quest for orthologs

artículo científico publicado en 2016

Structure and function of the global topsoil microbiome

artículo científico publicado en 2018

Subspecies in the global human gut microbiome.

artículo científico publicado en 2017

The Quest for Orthologs benchmark service and consensus calls in 2020

scientific article published on 06 May 2020

The human phylome

artículo científico publicado en 2007

Whole-genome analyses resolve early branches in the tree of life of modern birds

artículo científico publicado en 2014

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

artículo científico publicado en 2015

eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses

artículo científico publicado en 2019

eggNOG v4.0: nested orthology inference across 3686 organisms

artículo científico publicado en 2013

proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes

artículo científico publicado en 2020

proGenomes: a resource for consistent functional and taxonomic annotations of prokaryotic genomes

artículo científico publicado en 2016

Lista de obras de Jaime Huerta-Cepas

A Critical Review on the Use of Support Values in Tree Viewers and Bioinformatics Toolkits.

Advances and Applications in the Quest for Orthologs

An integrated approach for genome annotation of the eukaryotic thermophile Chaetomium thermophilum

Antibiotics-induced monodominance of a novel gut bacterial order

ArthropodaCyc: a CycADS powered collection of BioCyc databases to analyse and compare metabolism of arthropods

Assigning duplication events to relative temporal scales in genome-wide studies

Automatic Prediction of the Genetic Code

Comparative transcriptomics of early dipteran development

CycADS: an annotation database system to ease the development and update of BioCyc databases

Disentangling the impact of environmental and phylogenetic constraints on prokaryotic within-species diversity

Durable coexistence of donor and recipient strains after fecal microbiota transplantation.

ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data.

ETE: a python Environment for Tree Exploration

Evidence for short-time divergence and long-time conservation of tissue-specific expression after gene duplication

Evidence for systems-level molecular mechanisms of tumorigenesis

Fast genome-wide functional annotation through orthology assignment by eggNOG-mapper

Fast genome-wide functional annotation through orthology assignment by eggNOG-mapper

Fine-scale evolution: genomic, phenotypic and ecological differentiation in two coexisting Salinibacter ruber strains

From genes to functional classes in the study of biological systems

Function, evolution, and structure of J-domain proteins

GEPAS, a web-based tool for microarray data analysis and interpretation

Gearing up to handle the mosaic nature of life in the quest for orthologs

Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome

Interoperability with Moby 1.0--it's better than sharing your toothbrush!

MOCAT2: a metagenomic assembly, annotation and profiling framework

MetaPhOrs: orthology and paralogy predictions from multiple phylogenetic evidence using a consistency-based confidence score.

Metabolic anchor reactions for robust biorefining

Microbial abundance, activity and population genomic profiling with mOTUs2

NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language

NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language.

Neuroprotection elicited by P2Y13 receptors against genotoxic stress by inducing DUSP2 expression and MAPK signaling recovery.

Next station in microarray data analysis: GEPAS.

PTMcode v2: a resource for functional associations of post-translational modifications within and between proteins

PeroxisomeDB: a database for the peroxisomal proteome, functional genomics and disease

Phylemon 2.0: a suite of web-tools for molecular evolution, phylogenetics, phylogenomics and hypotheses testing

Phylemon: a suite of web tools for molecular evolution, phylogenetics and phylogenomics

PhylomeDB v3.0: an expanding repository of genome-wide collections of trees, alignments and phylogeny-based orthology and paralogy predictions

PhylomeDB v4: zooming into the plurality of evolutionary histories of a genome

PhylomeDB: a database for genome-wide collections of gene phylogenies

Prokaryotic ancestry and gene fusion of a dual localized peroxiredoxin in malaria parasites

Quest for Orthologs Entails Quest for Tree of Life: In Search of the Gene Stream

STRING v10: protein-protein interaction networks, integrated over the tree of life

STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets

Standardized benchmarking in the quest for orthologs

Structure and function of the global topsoil microbiome

Subspecies in the global human gut microbiome.

The Quest for Orthologs benchmark service and consensus calls in 2020

The human phylome

Whole-genome analyses resolve early branches in the tree of life of modern birds

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses

eggNOG v4.0: nested orthology inference across 3686 organisms

proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes

proGenomes: a resource for consistent functional and taxonomic annotations of prokaryotic genomes