Applied Biosystems’ Dr. Rhodes says the company aligns for NGS expansion by providing end-to-end solutions for each application, with the goal of making sure that the entire process—sample preparation, library construction, sequencing reactions, and bioinformatics—are “as simple as possible.”
At the CHI meeting, Dr. Rhodes will present the latest data from the SOLiD system, emphasizing how the product enables researchers to use a single system to carry out systems biology experiments. “I’ll show examples in which genome sequencing data and transcriptomics data are combined,” he says. “I’ll also highlight some of the new analysis tools available as well as the results obtained with them.”
The biggest challenge, according to Dr. Rhodes, is bioinformatics. “The other parts of the NGS process are improving at such a pace that our users have found the bioinformatics hard to keep up with,” he explains. “To alleviate this, we make sure analysis is simple to execute and, as much as possible, in a preconfigured pipeline so that the user needs minimal interaction.”
“Many people bought machines and produced data; now analyzing that data is the issue,” adds Martin Seifert, Ph.D., GM Genomatix. “We start where hardware ends—we bring all the data analysis into one place and give it context.”
Dr. Seifert’s presentation will focus on live data analysis to show Genomatix’ core strength. “The large amounts of data derived from NGS projects make efficient data-mining strategies necessary if we are to keep pace with the platform data flow,” he explains.
“I’ll show strategies for analyzing epigenetic markers such as methylation. These strategies begin with high-efficiency mapping of raw sequence tags, rapid clustering and peak finding, and data integration into an up-to-date genome annotation database for downstream analysis. I’ll show seamless mining of enriched regions for epigenetic markers in correlation with RNA-seq data.”