PhylomeDB v4: zooming into the plurality of evolutionary histories of a genome (Q34387795)

1 August 2017

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

1 reference

Salvador Capella-Gutierrez

1 August 2017

series ordinal

2

1 reference

1 August 2017

5

1 reference

1 August 2017

Leszek P Pryszcz

3

0 references

Marina Marcet-Houben

object named as

Marina Marcet-Houben

series ordinal

4

0 references

Jaime Huerta-Cepas

series ordinal

1

object named as

Jaime Huerta-Cepas

1 reference

PubMed ID

24275491

1 August 2017

language of work or name

English

0 references

publication date

25 November 2013

1 reference

1 August 2017

Nucleic Acids Research

1 reference

1 August 2017

42

1 reference

1 August 2017

Database issue

1 reference

1 August 2017

D897-902

1 reference

Creative Commons Attribution 3.0 Unported

1 August 2017

start time

4 October 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

State-of the art methodologies dictate new standards for phylogenetic analysis

1 reference

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The PhyloFacts FAT-CAT web server: ortholog identification and function prediction using fast approximate tree classification

6 July 2018

1 reference

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Genome structure and metabolic features in the red seaweed Chondrus crispus shed light on evolution of the Archaeplastida

6 July 2018

1 reference

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Comparative transcriptomics of early dipteran development

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

Genome sequence of the necrotrophic fungus Penicillium digitatum, the main postharvest pathogen of citrus

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

The Schistosoma mansoni phylome: using evolutionary genomics to gain insight into a parasite's biology

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

FlyBase: improvements to the bibliography

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

The genome of melon (Cucumis melo L.).

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

Toward community standards in the quest for orthologs

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

The Pfam protein families database

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

The Candida genome database incorporates multiple Candida species: multispecies search and analysis tools with curated gene and protein information for Candida albicans and Candida glabrata

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

6 July 2018

The Génolevures database

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

Conceptual framework and pilot study to benchmark phylogenomic databases based on reference gene trees

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

2x genomes--depth does matter

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

ETE: a python Environment for Tree Exploration

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

Databases of homologous gene families for comparative genomics

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

The tree versus the forest: the fungal tree of life and the topological diversity within the yeast phylome

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

Phylogenetic and functional assessment of orthologs inference projects and methods

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebrates

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

Large-scale assignment of orthology: back to phylogenetics?

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

The GOA database in 2009--an integrated Gene Ontology Annotation resource

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

Topological variation in single-gene phylogenetic trees

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

M-Coffee: combining multiple sequence alignment methods with T-Coffee

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

Phylogenomics: intersection of evolution and genomics

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3964985

The ribosomal protein genes and Minute loci of Drosophila melanogaster

6 July 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKT1177

Functional and evolutionary implications of gene orthology.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKT1177

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKT1177

Joining forces in the quest for orthologs

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKT1177

The pea aphid phylome: a complete catalogue of evolutionary histories and arthropod orthology and paralogy relationships for Acyrthosiphon pisum genes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKT1177

My worries are no longer behind me.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKT1177

Letter to the editor: SeqXML and OrthoXML: standards for sequence and orthology information

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKT1177

Heads or tails: a simple reliability check for multiple sequence alignments

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24275491

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKT1177

1 reference

journals/nar/Huerta-CepasCPMG14

1 August 2017

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

1 August 2017

1 reference

PubMed ID

24275491