Visualization of Genomic Data: Results, Challenges and Open Questions
As our ability to generate huge amounts of sequencing data continues to increase, data analysis is becoming the rate-limiting step in genomics studies. There are a number of graphical methods designed for the analysis of genome assemblies, genome browsing, comparative genomics, etc.
Visualization tools facilitate analysis tasks by enabling researchers to explore, interpret, and manipulate their data. We will highlight new challenges in visualization that are not only a consequence of the sheer volume and complexity of genomic data, but also it's increasing utility outside genomics research. Traditional genome visualization approaches do not meet the needs of emerging fields such as medical genomics and metagenomics, and new paradigms are needed.
Dubchak's interests are related to evolution and comparative analysis of both coding and non-coding regions of genomes. Computational algorithms and associated bioinformatics and visualization tools for genomic sequence analysis developed by her lab are used by the scientific community world wide.
Among them are: VISTA - a suite of programs and databases for comparative analysis of genomic sequences. The VISTA Enhancer Browser - a central resource for experimentally validated human noncoding fragments with gene enhancer activity as assessed in transgenic mice; RegTransBase - a database of regulatory sequences and interactions in a wide range of prokaryotic genomes and SNP-VISTA - an interactive SNP visualization tool.