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Protocols

COGs specifications

Information


Unique identifier OMICS_01688
Name COGs
Alternative names the Clusters of Orthologous Groups of proteins, COG database, the Clusters of Orthologous Groups of proteins COGs, COG
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained Yes

Subtools


  • arCOGs
  • COG software
  • KOGs
  • mimiCOOGs
  • NCVOGs
  • POGs

Maintainers


  • person_outline COG Team
  • person_outline Yuri Wolf
  • person_outline Eugene Koonin

Publications for the Clusters of Orthologous Groups of proteins

COGs citations

 (558)
library_books

Codon usage bias reveals genomic adaptations to environmental conditions in an acidophilic consortium

2018
PLoS One
PMCID: 5942774
PMID: 29742107
DOI: 10.1371/journal.pone.0195869

[…] COG categories for all groups were assigned based on a protein BLAST search against the 2014 COG database with e-value and identity cutoffs of 1e-5 and 40% respectively. In the case of protein sequences from the metagenomic sample, only those with a length of at least 90% of the hit length we […]

library_books

Comparative Metatranscriptomics of Wheat Rhizosphere Microbiomes in Disease Suppressive and Non suppressive Soils for Rhizoctonia solani AG8

2018
Front Microbiol
PMCID: 5945926
PMID: 29780371
DOI: 10.3389/fmicb.2018.00859

[…] age to the categories of Metabolism (35%), Information, Storage and Processing (28%), Cellular Processes (17%), and Poorly Categorised COGs (20%). The number of orthologous groups identified from the COG database for all 12 samples was 9,950. Seventeen orthologous groups showed differential expression (P < 0.05, FRD < 0.05, FC ≥ 2) (Table ). The five COGs with greater transcript counts in the non- […]

library_books

Highly Promiscuous Oxidases Discovered in the Bovine Rumen Microbiome

2018
Front Microbiol
PMCID: 5945886
PMID: 29780372
DOI: 10.3389/fmicb.2018.00861

[…] ronmental databases (e-value < 10-8, identity > 35%, and query length coverage ≥ 50%). The ORFs were assigned to clusters of orthologous groups of proteins (COGs) using RPS-BLAST analysis against the COG database (e-values ≤ 10-8). A comparison was performed using BLASTP analysis against the Laccase and multicopper oxidase engineering database (LccED) (e-value < 10-8, identity ≥ 20%, and query len […]

library_books

Culturing of female bladder bacteria reveals an interconnected urogenital microbiota

2018
Nat Commun
PMCID: 5908796
PMID: 29674608
DOI: 10.1038/s41467-018-03968-5

[…] To identify protein domains in a genome, we performed RPS-BLAST using CDD. All protein domains were classified in different functional categories using COG database and were used to perform DAPC implemented in the R package Adegenet v2.0.1. Domain enrichment was calculated using one-sided Fisher’s exact test with p-value adjusted by Hochberg method i […]

library_books

Strategies for high altitude adaptation revealed from high quality draft genome of non violacein producing Janthinobacterium lividum ERGS5:01

2018
Stand Genomic Sci
PMCID: 5909252
PMID: 29721151
DOI: 10.1186/s40793-018-0313-3

[…] platform [, ]. The functions of the predicted protein-coding genes and genes with Pfam domains were assigned using the Interpro platform []. Genes assigned to COGs were assigned by searching against COG database (from the NCBI conserved domain database []) using rpsblast with significant E-value of 0.0001.BLASTclust with thresholds of 70% covered length and 30% sequence identity was used to obtai […]

library_books

Metaproteogenomic Profiling of Microbial Communities Colonizing Actively Venting Hydrothermal Chimneys

2018
Front Microbiol
PMCID: 5904459
PMID: 29696004
DOI: 10.3389/fmicb.2018.00680

[…] ation was performed by BLAT-based comparison () against the NCBI RefSeq Database (Release 55). Functional classification was performed by BLAT-based search against the Clusters of Orthologous Groups (COG) database (). For phylogenetic and functional classification, a maximum e-value of 1e-5, a minimum sequence identity of 60%, and a minimum alignment length of 15 amino acids (aa) was used.De novo […]

Citations

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COGs institution(s)
National Center for Biotechnology Information, NLM, National Institutes of Health, Bethesda, MD, USA
COGs funding source(s)
Supported by the NIH Intramural Research Program at the National Library of Medicine, US Department of Health and Human Services.

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