Bose, Ranjan ; Thiel, Gerhard ; Hamacher, Kay (2014)
Clustering of Giant Virus-DNA Based on Variations in Local Entropy.
In: Viruses, 6 (6)
Artikel, Bibliographie
Kurzbeschreibung (Abstract)
We present a method for clustering genomic sequences based on variations in local entropy. We have analyzed the distributions of the block entropies of viruses and plant genomes. A distinct pattern for viruses and plant genomes is observed. These distributions, which describe the local entropic variability of the genomes, are used for clustering the genomes based on the Jensen-Shannon (JS) distances. The analysis of the JS distances between all genomes that infect the chlorella algae shows the host specificity of the viruses. We illustrate the efficacy of this entropy-based clustering technique by the segregation of plant and virus genomes into separate bins.
| Typ des Eintrags: | Artikel |
|---|---|
| Erschienen: | 2014 |
| Autor(en): | Bose, Ranjan ; Thiel, Gerhard ; Hamacher, Kay |
| Art des Eintrags: | Bibliographie |
| Titel: | Clustering of Giant Virus-DNA Based on Variations in Local Entropy. |
| Sprache: | Englisch |
| Publikationsjahr: | 2014 |
| Titel der Zeitschrift, Zeitung oder Schriftenreihe: | Viruses |
| Jahrgang/Volume einer Zeitschrift: | 6 |
| (Heft-)Nummer: | 6 |
| Kurzbeschreibung (Abstract): | We present a method for clustering genomic sequences based on variations in local entropy. We have analyzed the distributions of the block entropies of viruses and plant genomes. A distinct pattern for viruses and plant genomes is observed. These distributions, which describe the local entropic variability of the genomes, are used for clustering the genomes based on the Jensen-Shannon (JS) distances. The analysis of the JS distances between all genomes that infect the chlorella algae shows the host specificity of the viruses. We illustrate the efficacy of this entropy-based clustering technique by the segregation of plant and virus genomes into separate bins. |
| Fachbereich(e)/-gebiet(e): | 10 Fachbereich Biologie 10 Fachbereich Biologie > Plant Membrane Biophyscis (am 20.12.23 umbenannt in Biologie der Algen und Protozoen) 10 Fachbereich Biologie > Computational Biology and Simulation |
| Hinterlegungsdatum: | 10 Jun 2014 11:17 |
| Letzte Änderung: | 24 Apr 2018 10:21 |
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