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

Research output: Contribution to journalJournal articleResearchpeer-review

Standard

eggNOG 5.0 : a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses. / Huerta-Cepas, Jaime; Szklarczyk, Damian; Heller, Davide; Hernández-Plaza, Ana; Forslund, Sofia K; Cook, Helen; Mende, Daniel R; Letunic, Ivica; Rattei, Thomas; Jensen, Lars J; von Mering, Christian; Bork, Peer.

In: Nucleic Acids Research, Vol. 47, No. D1, 2019, p. D309-D314.

Research output: Contribution to journalJournal articleResearchpeer-review

Harvard

Huerta-Cepas, J, Szklarczyk, D, Heller, D, Hernández-Plaza, A, Forslund, SK, Cook, H, Mende, DR, Letunic, I, Rattei, T, Jensen, LJ, von Mering, C & Bork, P 2019, 'eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses', Nucleic Acids Research, vol. 47, no. D1, pp. D309-D314. https://doi.org/10.1093/nar/gky1085

APA

Huerta-Cepas, J., Szklarczyk, D., Heller, D., Hernández-Plaza, A., Forslund, S. K., Cook, H., ... Bork, P. (2019). eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses. Nucleic Acids Research, 47(D1), D309-D314. https://doi.org/10.1093/nar/gky1085

Vancouver

Huerta-Cepas J, Szklarczyk D, Heller D, Hernández-Plaza A, Forslund SK, Cook H et al. eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses. Nucleic Acids Research. 2019;47(D1):D309-D314. https://doi.org/10.1093/nar/gky1085

Author

Huerta-Cepas, Jaime ; Szklarczyk, Damian ; Heller, Davide ; Hernández-Plaza, Ana ; Forslund, Sofia K ; Cook, Helen ; Mende, Daniel R ; Letunic, Ivica ; Rattei, Thomas ; Jensen, Lars J ; von Mering, Christian ; Bork, Peer. / eggNOG 5.0 : a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses. In: Nucleic Acids Research. 2019 ; Vol. 47, No. D1. pp. D309-D314.

Bibtex

@article{d866147ab8764734b8da863a2be30a9d,
title = "eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses",
abstract = "eggNOG is a public database of orthology relationships, gene evolutionary histories and functional annotations. Here, we present version 5.0, featuring a major update of the underlying genome sets, which have been expanded to 4445 representative bacteria and 168 archaea derived from 25 038 genomes, as well as 477 eukaryotic organisms and 2502 viral proteomes that were selected for diversity and filtered by genome quality. In total, 4.4M orthologous groups (OGs) distributed across 379 taxonomic levels were computed together with their associated sequence alignments, phylogenies, HMM models and functional descriptors. Precomputed evolutionary analysis provides fine-grained resolution of duplication/speciation events within each OG. Our benchmarks show that, despite doubling the amount of genomes, the quality of orthology assignments and functional annotations (80{\%} coverage) has persisted without significant changes across this update. Finally, we improved eggNOG online services for fast functional annotation and orthology prediction of custom genomics or metagenomics datasets. All precomputed data are publicly available for downloading or via API queries at http://eggnog.embl.de.",
author = "Jaime Huerta-Cepas and Damian Szklarczyk and Davide Heller and Ana Hern{\'a}ndez-Plaza and Forslund, {Sofia K} and Helen Cook and Mende, {Daniel R} and Ivica Letunic and Thomas Rattei and Jensen, {Lars J} and {von Mering}, Christian and Peer Bork",
year = "2019",
doi = "10.1093/nar/gky1085",
language = "English",
volume = "47",
pages = "D309--D314",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "D1",

}

RIS

TY - JOUR

T1 - eggNOG 5.0

T2 - a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses

AU - Huerta-Cepas, Jaime

AU - Szklarczyk, Damian

AU - Heller, Davide

AU - Hernández-Plaza, Ana

AU - Forslund, Sofia K

AU - Cook, Helen

AU - Mende, Daniel R

AU - Letunic, Ivica

AU - Rattei, Thomas

AU - Jensen, Lars J

AU - von Mering, Christian

AU - Bork, Peer

PY - 2019

Y1 - 2019

N2 - eggNOG is a public database of orthology relationships, gene evolutionary histories and functional annotations. Here, we present version 5.0, featuring a major update of the underlying genome sets, which have been expanded to 4445 representative bacteria and 168 archaea derived from 25 038 genomes, as well as 477 eukaryotic organisms and 2502 viral proteomes that were selected for diversity and filtered by genome quality. In total, 4.4M orthologous groups (OGs) distributed across 379 taxonomic levels were computed together with their associated sequence alignments, phylogenies, HMM models and functional descriptors. Precomputed evolutionary analysis provides fine-grained resolution of duplication/speciation events within each OG. Our benchmarks show that, despite doubling the amount of genomes, the quality of orthology assignments and functional annotations (80% coverage) has persisted without significant changes across this update. Finally, we improved eggNOG online services for fast functional annotation and orthology prediction of custom genomics or metagenomics datasets. All precomputed data are publicly available for downloading or via API queries at http://eggnog.embl.de.

AB - eggNOG is a public database of orthology relationships, gene evolutionary histories and functional annotations. Here, we present version 5.0, featuring a major update of the underlying genome sets, which have been expanded to 4445 representative bacteria and 168 archaea derived from 25 038 genomes, as well as 477 eukaryotic organisms and 2502 viral proteomes that were selected for diversity and filtered by genome quality. In total, 4.4M orthologous groups (OGs) distributed across 379 taxonomic levels were computed together with their associated sequence alignments, phylogenies, HMM models and functional descriptors. Precomputed evolutionary analysis provides fine-grained resolution of duplication/speciation events within each OG. Our benchmarks show that, despite doubling the amount of genomes, the quality of orthology assignments and functional annotations (80% coverage) has persisted without significant changes across this update. Finally, we improved eggNOG online services for fast functional annotation and orthology prediction of custom genomics or metagenomics datasets. All precomputed data are publicly available for downloading or via API queries at http://eggnog.embl.de.

U2 - 10.1093/nar/gky1085

DO - 10.1093/nar/gky1085

M3 - Journal article

C2 - 30418610

VL - 47

SP - D309-D314

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - D1

ER -

ID: 209323979