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{bio,medical} informatics

Tuesday, July 24, 2001

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GenomeWeb Compaq and EBS Break Billion Comparison-per-Second Barrier in 1 GHz Alpha Demo

"Compaq Computer and Edinburgh Biocomputing Systems said Monday they had successfully achieved one billion comparisons per second running the Smith-Waterman algorithm on a single 1 GHz Alpha processor."

In a demonstration at the International Conference on Intelligent Systems for Molecular Biology, EBS used its MPSRCH sequence analysis software to run a Smith-Waterman search on a 353-residue protein sequence in Swiss-Prot in 12.5 seconds. EBS CEO Shane Sturrock said the same search would have taken 17 times as long using a standard Smith-Waterman implementation such as S-Search on the same machine."

"Noting that "there has been some confusion" in the life sciences community about the Alpha phase-out that the company announced several weeks ago, Binns reiterated that the company plans to support the Alpha technology even as it moves toward implementation of the Intel Itanium platform."

redux [06.26.01]
Forbes IBM's Biotech Resurgence
"In 1998, biotech upstart Celera Genomics needed a supercomputer to help it map the human genome. It didn't turn to IBM , which built 204 of the 500 fastest supercomputers. Both Celera and its academic competition, the Human Genome Project, used machines built by Compaq Computer. Two years later, Compaq is the leading seller of supercomputers to biological researchers.

But IBM noticed that biologists now need microprocessors as much as microscopes. A year ago, it used $100 million to start a division that sells computers, software and services to biotechnology and drug companies. This life sciences division has had some success; pulling into second place behind Compaq, it must do better."
redux [05.21.01]
Business 2.0 Tech Giants Court The Genome Crowd
"According to scientists, decoding the human genome is the most complicated civilian computational problem ever tackled, and the data generated by genomics has been doubling every six months. Proteomics eventually will generate 100 times more data than genomics and require 1,000-times more computing power.

"We don't need an evolution in computing, we need a revolution . The normal increase in CPU power is just not enough," says Marshall Peterson, vice president of infrastructure development for Celera. "This is what we call Venter's law-it states that biology will outpace Moore's law. Fast makes the difference in the very beginning of a market, but we won't be at this stage for long.""

[ rhetoric ]

“Bioinformatics will be at the core of biology in the 21st century. In fields ranging from structural biology to genomics to biomedical imaging, ready access to data and analytical tools are fundamentally changing the way investigators in the life sciences conduct research and approach problems. Complex, computationally intensive biological problems are now being addressed and promise to significantly advance our understanding of biology and medicine. No biological discipline will be unaffected by these technological breakthroughs.”

BIOINFORMATICS IN THE 21st CENTURY

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