This is a very interesting discussion about FPGAs in bioinformatics. I generally only post to help with technical questions, but this discussion has had a lot of marketing information and opinions in it, so I feel it should be OK to post just one marketing-related mail. I promise it's the only one I'll post. I have been reading about a speedup factor of 10x to 100x when using a C-to-FPGA converter, and I would like to point out that for specific kinds of searches, we have seen speeds of 200X to 2,000X using our FPGA accelerators. We spend our R&D money to hand-craft the fastest loadfile so that your researchers can do the work they are interested in. If you would like to see citations of FPGAs used in this field, please see our marketing material at: http://timelogic.com/decypher_citations.html If you would like to see articles written by TimeLogic, please see our marketing material at: http://timelogic.com/company_articles.html http://timelogic.com/technology_whitepapers.html If you would like to see a list of current customers, please see our marketing material at: http://timelogic.com/sales_customers.html For further discussions, please contact me directly so that this list can remain a productive discussion of bioclusters. Thank you for allowing me this one-time-only marketing presentation. -Alan Kilian Director of Bioinformatics TimeLogic (kilian at timelogic.com) -- - Alan Kilian <kilian(at)bobodyne.com>