2023 Volume 2023 Issue 13 Pages 89-97
Recent revolutionary advancements in sequencing technologies have made it possible to obtain mass quantities of genome-scale sequence data in a cost-effective manner, and Genome Wide Association Studies (GWAS) which analyzes the relationships between genetic polymorphisms and phenotypes are actively conducted. We developed a web-based genome browser TASUKE which aimed to make anyone easily access to these large-scale genomic data with simple operation and to promote the utilization of the data by making it public. TASUKE displays rich information such as polymorphisms obtained from genome resequencing data of multiple samples and results of GWAS with wide range of resolution and various visualization modes. Single nucleotide polymorphisms and insertion/deletions of more than several hundred samples, their functional effect on genes, gene annotation, Manhattan plots of GWAS, sequencing depth, etc. are displayed in parallel. Users can very smoothly browse them with the wide range of resolution from one base pair to maximum 20 million base pairs in a window. These features enable users easily to understand the relationships of samples at a gene to a chromosomal level and ?nd the causal gene candidates for the speci?c phenotype by exploring GWAS result. Furthermore, functions such as designing PCR primers for the polymorphic sites of interest with avoiding peripheral variants and generating molecular phylogenetic tree are implemented. Here, we introduce the summary of TASUKE system and its application examples.
