6.0 years ago by
Washington University, St Louis, USA
This is very difficult to answer as prices will vary widely depending on academic vs non-academic pricing and the exact nature of the service. Even working inside a genome center it can be very hard to get solid estimates of what an "RNA-seq experiment" really costs internally. If you have a nearby genome center or core services at your university it is possible that you will be able to get a better deal through some kind of collaborative arrangement. On the microarray side, prices are probably more standardized but will still vary widely depending on which platform you are talking about. On the RNA-seq side it will really depend on exactly what kind of sequencing and how much you do.
To give you a general idea, LC sciences currently advertises $2500/sample for library preparation and sequencing for part of a HiSeq lane giving you up to 60 million 2x100bp reads of RNA-seq data. I think that is a typical price and amount of data you might expect from a commercial vendor. Depending on what you are trying to accomplish with the RNAseq experiment you may want more coverage than that. I list LC Sciences only because they were the only service provider that I found which actually listed prices online. It is generally the case that prices are only available upon request and tend to be negotiable.
There are many providers for Affy exon array services online. It seems the average price is around $800 per sample for full processing if you include the cost of array itself. But, there are also lots of options here (different labeling strategies, amplification, etc) that can increase costs. If you have your own hyb station and scanner for the array then maybe you can get it done for about half of that per sample.