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| Titel: |
nWayComp: A Genome-Wide Sequence Comparison Tool for Multiple Strains/Species of Phylogenetically Related Microorganisms |
| Auteur: |
Yao, Jiqiang Lin, Hong Doddapaneni, Harshavardhan Civerolo, Edwin L. |
| Verschenen in: |
In silico biology |
| Paginering: | Jaargang 7 (2007) nr. 2 pagina's 195-200 |
| Jaar: |
2007-08-14 |
| Inhoud: |
The increasing number of whole genomic sequences of microorganisms has led to the complexity of genome-wide annotation and gene sequence comparison among multiple microorganisms. To address this problem, we have developed nWayComp software that compares DNA and protein sequences of phylogenetically-related microorganisms. This package integrates a series of bioinformatics tools such as BLAST, ClustalW, ALIGN, PHYLIP and PRIMER3 for sequence comparison. It searches for homologous sequences among multiple organisms and identifies genes that are unique to a particular organism. The homologous gene sets are then ranked in the descending order of the sequence similarity. For each set of homologous sequences, a table of sequence identity among homologous genes along with sequence variations such as SNPs and INDELS is developed, and a phylogenetic tree is constructed. In addition, a common set of primers that can amplify all the homologous sequences are generated. The nWayComp package provides users with a quick and convenient tool to compare genomic sequences among multiple organisms at the whole-genome level. |
| Uitgever: |
IOS Press |
| Bronbestand: |
Elektronische Wetenschappelijke Tijdschriften |
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