Database Commons

a catalog of biological databases

e.g., animal; RNA; Methylation; China

Database information

KGCAK (A K-mer based database for genome-wide phylogeny and complexity evaluation)

General information

Description: a versatile database, containing ~8,000 genomes that include genome sequences of diverse life forms (viruses, prokaryotes, protists, animals, and plants) and cellular organelles of eukaryotic lineages.
Year founded: 2015
Last update: 2015-05-01
Version: 1.0
Accessibility:
Manual:
Unaccessible
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Country/Region: China
Data type:
DNA
Data object:
Database category:
Major organism:
NA
Keywords:

Contact information

University/Institution: Beijing Institute of Genomics, Chinese Academy of Sciences
Address: No.1 Beichen West Road, Chaoyang District
City: Beijing
Province/State:
Country/Region: China
Contact name (PI/Team): Jun Yu
Contact email (PI/Helpdesk): junyu@big.ac.cn

Related Database

Record metadata

Created on: 2016-05-06
Curated by:
Dong Zou [2019-12-03]

Ranking

All databases:
4497/4692 (4.177%)
Gene genome and annotation:
1206/1246 (3.291%)
4497
Total Rank
1
Citations
0.2
z-index

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Publications

26376976
KGCAK: a K-mer based database for genome-wide phylogeny and complexity evaluation. [PMID: 26376976]
Wang D, Xu J, Yu J.

The K-mer approach, treating genomic sequences as simple characters and counting the relative abundance of each string upon a fixed K, has been extensively applied to phylogeny inference for genome assembly, annotation, and comparison. To meet increasing demands for comparing large genome sequences and to promote the use of the K-mer approach, we develop a versatile database, KGCAK ( http://kgcak.big.ac.cn/KGCAK/ ), containing ~8,000 genomes that include genome sequences of diverse life forms (viruses, prokaryotes, protists, animals, and plants) and cellular organelles of eukaryotic lineages. It builds phylogeny based on genomic elements in an alignment-free fashion and provides in-depth data processing enabling users to compare the complexity of genome sequences based on K-mer distribution. We hope that KGCAK becomes a powerful tool for exploring relationship within and among groups of species in a tree of life based on genomic data.

Biol Direct. 2015:10() | 1 Citations (from Europe PMC, 2020-09-19)