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Old 06-02-2010, 08:45 PM   #1
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Default what can be done with micro rna seq from SOLiD of an organism with no ref?

Out of curiosity,
what can be done with micro rna seq from SOLiD of an organism with no reference?
Not very well acquainted with the field. But I presume the SOLiD 50bp is more than enough to cover the mature seq of the micro RNA.

without a reference genome, Can I still run microRNA prediction programs to verify the authencity?

can I still try to map this miRNA to a closely related species?

given that this is a novel organism, I guess any info is good enough so I probably can escape with sequencing at low coverage? (for discovery of 'novel' miRNA)

food for thought.
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