Costs of Sequenom SNP genotyping platform

[TKC]

Hi all,

I am trying to find information regarding the cost of utilizing the Sequenom MassArray genotyping platform, and have thus far been unable to do so.

I can easily get a quote from a service provider, but am trying to find the cost assuming that I had access to all necessary equipment (i.e. materials cost... including oligos/ development etc). Just a ballpark figure. Basically I am trying to find the point (# samples, #SNPs/ sample) at which a Sequenom assay would be come more affordable than other genotyping methods that we are also looking into.

Anyone have any experience with this platform, or could point me in the right direction?

Thanks in advance

[SNPsaurus]

I keep my eye on the Sequenom pricing, as it is a good high-throughput platform. There are two parts to the cost. The "chip", which is good for 384 samples and assaying 32 SNPs per sample, is around $1300. The primers run another $20 per SNP assayed for the 384 samples, but that would get cheaper per samples with more samples. You can figure out what a cost would look like from those two factors and at least be in the ballpark. I used http://core.iddrc.org/molecular-genetics/?page_id=46 pricing as an example, but they are in agreement with price breakdowns I have seen.

So doing 1536 samples and 64 SNPs per sample is 8 chips ($10,400) + primers for 64 SNPs ($1,280) = $11,680 or $7.60/sample. I think the strong spot is in large populations with dozens of SNPs. If you scale it to 1536 samples and 640 SNPs... 80 chips ($104,000) + $12,800 for the primers, so $116,800 or $76/sample. Then I think other platforms make sense.

[TKC]

Thank you SNPsaurus for the response and for your help a second time! That was exactly what I was looking for.

[yarinka]

Hi,

Sequenom seems to be a very nice option for massive SNP assays. It would be a perfect option for my population genetics project- I need to analyze ~ 100 - 200 SNPs in 2000 samples. Unfortunately IDDRC.ORG works only with human DNA, so I was wondering if you know a company that would work with non-model species DNA (lobster)?

Thanks!

[exseq]

try LGC genomics. They have their own genotyping platform. It deals with low to medium SNP number (up to several thousand) and anything up to and over a million samples.

Some of their customers deal with 20 to 30 SNP's over a million samples on their own installed platform. The prices are far from extortionate and it's worth looking at their website.

[yarinka]

Thank you for your reply, it was very helpful!