The problem is that there are many types, formats and dimensions of data, and, therefore as many or even more types of software. Its a two-fold problem.
At the December 2006 American Society for Cell Biology meeting, there was a Special Interest Subgroup entitled "Managing the Data Explosion in Systems Biology".
It seems clear to me that the key to building effective eScience environments is doing just what this Gaggle of bioinformatics researchers have done: stitch together small best-of-breed modules into a cohesive whole, rather than build a monolithic application.
Gaggle manuscript ranked in the top 100 (#49) "Most influential publications in high-throughput screening" in 2006
In this review, I describe a sample of the software used at ISB, focusing on elements that have moved beyond proof-of-principle and may be relevant to other groups engaged in systems biology.
Completion of Haloarcula marismortui Genome sequencing
featured in Genome Research
Scientists at the Institute for Systems Biology (ISB) in collaboration with researchers from National Yan Ming University (NYMU) in Taiwan and University of Texas at Austin have fully sequenced the complete genome of Haloarcula marismortui, a microorganism that thrives in the Dead Sea.
Systems Approach Depicts How Halobacterium Responds to Metal Fluxes