Název:
Alignment-free Methods for Classification of Metagenomic Data
Autoři:
Vaněčková, Tereza Typ dokumentu: Příspěvky z konference
Jazyk:
eng
Nakladatel: Vysoké učení technické v Brně, Fakulta elektrotechniky a komunikačních technologií
Abstrakt:
Metagenomics studies microbial communities by analyzing their genomic content directly sequenced from the environment. In this contribution, alignment-free methods based on word frequency will be introduced. It has been proven, that these methods are effective in processing of short metagenomic sequence reads produced by Next-Generation Sequencing technologies. To evaluate the potential of word frequency based methods, the k-mer analysis was applied on simulated dataset of metagenomic sequence reads with length of 600 nucleotides. Then the data were enrolled for a hierarchical cluster analysis. Results have shown that the proposed method is able to cluster genome fragments of the same taxa.
Klíčová slova:
alignment-free; hierarchical clustering; metagenomics; nucleotide word frequency Zdrojový dokument: Proceedings of the 22nd Conference STUDENT EEICT 2016, ISBN 978-80-214-5350-0
Instituce: Vysoké učení technické v Brně
(web)
Informace o dostupnosti dokumentu:
Plný text je dostupný v Digitální knihovně VUT. Původní záznam: http://hdl.handle.net/11012/83930