eggNOG 6.0: enabling comparative genomics across 12 535 organisms

Research output: Contribution to journal › Journal article › Research › peer-review

Standard

eggNOG 6.0 : enabling comparative genomics across 12 535 organisms. / Hernández-Plaza, Ana; Szklarczyk, Damian; Botas, Jorge; Cantalapiedra, Carlos P; Giner-Lamia, Joaquín; Mende, Daniel R; Kirsch, Rebecca; Rattei, Thomas; Letunic, Ivica; Jensen, Lars J; Bork, Peer; von Mering, Christian; Huerta-Cepas, Jaime.

In: Nucleic Acids Research, Vol. 51, No. D1, 2023, p. D389-D394.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Hernández-Plaza, A, Szklarczyk, D, Botas, J, Cantalapiedra, CP, Giner-Lamia, J, Mende, DR, Kirsch, R, Rattei, T, Letunic, I, Jensen, LJ, Bork, P, von Mering, C & Huerta-Cepas, J 2023, 'eggNOG 6.0: enabling comparative genomics across 12 535 organisms', Nucleic Acids Research, vol. 51, no. D1, pp. D389-D394. https://doi.org/10.1093/nar/gkac1022

APA

Hernández-Plaza, A., Szklarczyk, D., Botas, J., Cantalapiedra, C. P., Giner-Lamia, J., Mende, D. R., Kirsch, R., Rattei, T., Letunic, I., Jensen, L. J., Bork, P., von Mering, C., & Huerta-Cepas, J. (2023). eggNOG 6.0: enabling comparative genomics across 12 535 organisms. Nucleic Acids Research, 51(D1), D389-D394. https://doi.org/10.1093/nar/gkac1022

Vancouver

Hernández-Plaza A, Szklarczyk D, Botas J, Cantalapiedra CP, Giner-Lamia J, Mende DR et al. eggNOG 6.0: enabling comparative genomics across 12 535 organisms. Nucleic Acids Research. 2023;51(D1):D389-D394. https://doi.org/10.1093/nar/gkac1022

Author

Hernández-Plaza, Ana ; Szklarczyk, Damian ; Botas, Jorge ; Cantalapiedra, Carlos P ; Giner-Lamia, Joaquín ; Mende, Daniel R ; Kirsch, Rebecca ; Rattei, Thomas ; Letunic, Ivica ; Jensen, Lars J ; Bork, Peer ; von Mering, Christian ; Huerta-Cepas, Jaime. / eggNOG 6.0 : enabling comparative genomics across 12 535 organisms. In: Nucleic Acids Research. 2023 ; Vol. 51, No. D1. pp. D389-D394.

Bibtex

@article{0aa4645fa3cb49f0b57f8952ac0fa9fc,
title = "eggNOG 6.0: enabling comparative genomics across 12 535 organisms",
abstract = "The eggNOG (evolutionary gene genealogy Non-supervised Orthologous Groups) database is a bioinformatics resource providing orthology data and comprehensive functional information for organisms from all domains of life. Here, we present a major update of the database and website (version 6.0), which increases the number of covered organisms to 12 535 reference species, expands functional annotations, and implements new functionality. In total, eggNOG 6.0 provides a hierarchy of over 17M orthologous groups (OGs) computed at 1601 taxonomic levels, spanning 10 756 bacterial, 457 archaeal and 1322 eukaryotic organisms. OGs have been thoroughly annotated using recent knowledge from functional databases, including KEGG, Gene Ontology, UniProtKB, BiGG, CAZy, CARD, PFAM and SMART. eggNOG also offers phylogenetic trees for all OGs, maximising utility and versatility for end users while allowing researchers to investigate the evolutionary history of speciation and duplication events as well as the phylogenetic distribution of functional terms within each OG. Furthermore, the eggNOG 6.0 website contains new functionality to mine orthology and functional data with ease, including the possibility of generating phylogenetic profiles for multiple OGs across species or identifying single-copy OGs at custom taxonomic levels. eggNOG 6.0 is available at http://eggnog6.embl.de.",
author = "Ana Hern{\'a}ndez-Plaza and Damian Szklarczyk and Jorge Botas and Cantalapiedra, {Carlos P} and Joaqu{\'i}n Giner-Lamia and Mende, {Daniel R} and Rebecca Kirsch and Thomas Rattei and Ivica Letunic and Jensen, {Lars J} and Peer Bork and {von Mering}, Christian and Jaime Huerta-Cepas",
note = "{\textcopyright} The Author(s) 2022. Published by Oxford University Press on behalf of Nucleic Acids Research.",
year = "2023",
doi = "10.1093/nar/gkac1022",
language = "English",
volume = "51",
pages = "D389--D394",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "D1",

}

RIS

TY - JOUR

T1 - eggNOG 6.0

T2 - enabling comparative genomics across 12 535 organisms

AU - Hernández-Plaza, Ana

AU - Szklarczyk, Damian

AU - Botas, Jorge

AU - Cantalapiedra, Carlos P

AU - Giner-Lamia, Joaquín

AU - Mende, Daniel R

AU - Kirsch, Rebecca

AU - Rattei, Thomas

AU - Letunic, Ivica

AU - Jensen, Lars J

AU - Bork, Peer

AU - von Mering, Christian

AU - Huerta-Cepas, Jaime

N1 - © The Author(s) 2022. Published by Oxford University Press on behalf of Nucleic Acids Research.

PY - 2023

Y1 - 2023

N2 - The eggNOG (evolutionary gene genealogy Non-supervised Orthologous Groups) database is a bioinformatics resource providing orthology data and comprehensive functional information for organisms from all domains of life. Here, we present a major update of the database and website (version 6.0), which increases the number of covered organisms to 12 535 reference species, expands functional annotations, and implements new functionality. In total, eggNOG 6.0 provides a hierarchy of over 17M orthologous groups (OGs) computed at 1601 taxonomic levels, spanning 10 756 bacterial, 457 archaeal and 1322 eukaryotic organisms. OGs have been thoroughly annotated using recent knowledge from functional databases, including KEGG, Gene Ontology, UniProtKB, BiGG, CAZy, CARD, PFAM and SMART. eggNOG also offers phylogenetic trees for all OGs, maximising utility and versatility for end users while allowing researchers to investigate the evolutionary history of speciation and duplication events as well as the phylogenetic distribution of functional terms within each OG. Furthermore, the eggNOG 6.0 website contains new functionality to mine orthology and functional data with ease, including the possibility of generating phylogenetic profiles for multiple OGs across species or identifying single-copy OGs at custom taxonomic levels. eggNOG 6.0 is available at http://eggnog6.embl.de.

AB - The eggNOG (evolutionary gene genealogy Non-supervised Orthologous Groups) database is a bioinformatics resource providing orthology data and comprehensive functional information for organisms from all domains of life. Here, we present a major update of the database and website (version 6.0), which increases the number of covered organisms to 12 535 reference species, expands functional annotations, and implements new functionality. In total, eggNOG 6.0 provides a hierarchy of over 17M orthologous groups (OGs) computed at 1601 taxonomic levels, spanning 10 756 bacterial, 457 archaeal and 1322 eukaryotic organisms. OGs have been thoroughly annotated using recent knowledge from functional databases, including KEGG, Gene Ontology, UniProtKB, BiGG, CAZy, CARD, PFAM and SMART. eggNOG also offers phylogenetic trees for all OGs, maximising utility and versatility for end users while allowing researchers to investigate the evolutionary history of speciation and duplication events as well as the phylogenetic distribution of functional terms within each OG. Furthermore, the eggNOG 6.0 website contains new functionality to mine orthology and functional data with ease, including the possibility of generating phylogenetic profiles for multiple OGs across species or identifying single-copy OGs at custom taxonomic levels. eggNOG 6.0 is available at http://eggnog6.embl.de.

U2 - 10.1093/nar/gkac1022

DO - 10.1093/nar/gkac1022

M3 - Journal article

C2 - 36399505

VL - 51

SP - D389-D394

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - D1

ER -

ID: 331589220