genome de novo assembly costs

[cip]

Hello,

I would like to get just a rough idea (to avoid the hassle of asking for quotes) of what is currently (Feb 2015) the price of a genome de novo assembly for a genome of around 0.5 pg or 500 Mb.

How does it compare with a de novo transcriptome assembly in price?

Thanks very much.

[sarvidsson]

That depends what you need - for a reasonable assembly you need two high quality mate pair libraries, which can be pricey. Two channels of HiSeq with a shotgun library and two different mate pair libraries and the bioinformatics would cost you about 10 000 €. You can do a de novo transcriptome (wet lab normalized cDNA library) with bioinformatics for about half of that.

[cip]

Thanks a lot sarvidsson. I thought it would be in the scale of 100K, rather than 10K. How much is the bioinformatics to do the assembly?.

[sarvidsson]

PM sent.....

[luc]

Depending on the nature of your organism (e.g. heterozygosity) and your access to a PacBio RS you could get the sequences for a fantastic genome assembly for ~ $13k with PacBio reads.