On Sunday, April 1, 2012 3:36:42 PM UTC-7, Tom Randall wrote:
$2500 for 1 lane of Illumina HiSeq which should provide the necessary coverage for a small genome like this; other companies I got quotes from were around $3500. It is a little over the top, but my day job is in bioinformatics analyzing other peoples data, so I also want my own data to play with since I know how to run the necessary programs and thus do not have to also pay for the analysis.
The term "synthetic biology" gets thrown around a lot and it is not always clear what people mean when they use it. As you say, many common molecular biology projects involve DNA synthesis. Some of the DNA sequencing projects I've worked on require custom barcoded primer sets, which must be synthesized (i.e., typically ordered from a vendor). Although I would not say that multiplex DNA sequencing using barcoded primers = synbio!
Your project sounds cool. Sounds like you may just push it ahead by paying out-of-pocket, but two ideas....I have heard of one person working w/ LA biohackers applying to BGI and receiving free DNA sequencing for an extremophile genome, but I think this was a circumstance where it was a previously unsequenced organism. Have you thought about putting your project up on PetriDish.org? $2500 seems like an achievable #, especially if there is a compelling story behind this mutant fungus. What is the backstory? Why is this fungus variant interesting?
Jason
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