ArticleBiology direct2015
KGCAK: a K-mer based database for genome-wide phylogeny and complexity evaluation.
Article in Biology direct, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed.
- Distribution rules of 8-mer spectra and characterization of evolution state in animal genome sequences.BMC genomics · 2024Article
- Intrinsic laws of k-mer spectra of genome sequences and evolution mechanism of genomes.BMC evolutionary biology · 2020Article
- riboSeed: leveraging prokaryotic genomic architecture to assemble across ribosomal regions.Nucleic acids research · 2018Article
- Informational laws of genome structures.Scientific reports · 2016Article
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Authors and funding
3 authors.
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Abstract
backgroundThe 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.
resultsTo 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.
conclusionWe 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.
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