Hi
Does anyone try transcriptome analysis of the organism of which reference genome is unknown?
The organism is plant, and have about 80 % similarity of Arabidopsis genes at nucleotide level.
Data type is SOLiD. I think the first step is de novo assembly of RNA, followed by the read mapping and estimation of gene expression.
I haven't tried RNA de novo assembly yet. Any suggestion ?
Ken
Does anyone try transcriptome analysis of the organism of which reference genome is unknown?
The organism is plant, and have about 80 % similarity of Arabidopsis genes at nucleotide level.
Data type is SOLiD. I think the first step is de novo assembly of RNA, followed by the read mapping and estimation of gene expression.
I haven't tried RNA de novo assembly yet. Any suggestion ?
Ken
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