[Arthropod] EST assembly from Illumina

Yannick Wurm via arthropod%40net.bio.net (by yannick.wurm from unil.ch)
Wed Dec 9 12:49:10 EST 2009


Hello again,

have another question.
We're thinking of doing some gene expression analyses for a species on which we have no sequence data and the closest sequenced relative is 100+ million years away.

I'm thinking it may be possible to do everything in one shot:
	1. RNAseq (using Illumina)  on our 2 conditions of interest
	2. Assembly of the RNAseq data to get good gene models -> annotate
	3. "classic" RNAseq analysis where to identify differential expression 

The alternative would be to first perform some 454 of a normalized library to get a good overview of the transcriptome.

Any experience with this? Do you think it's feasible?

Kind regards,
Yannick


--------------------------------------------
          yannick . wurm @ unil . ch
Ant Genomics, Ecology & Evolution @ Lausanne
   http://www.unil.ch/dee/page28685_fr.html





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