Dear seqanswers.com community,
I am working with a hexaploid organism. No genome is sequence is available yet. De novo assembly of 454 reads resulted in contigs that are often chimera of reads belonging to homeologous genomes. I was wondering if anyone has experience with transcriptome assembly using EST datasets as reference. I have plenty of ESTs available and coming these from clones are genome specific. However, reads will allign to multiple redundant ESTs.
Any suggestions or ideas?
Thanks, Dario
I am working with a hexaploid organism. No genome is sequence is available yet. De novo assembly of 454 reads resulted in contigs that are often chimera of reads belonging to homeologous genomes. I was wondering if anyone has experience with transcriptome assembly using EST datasets as reference. I have plenty of ESTs available and coming these from clones are genome specific. However, reads will allign to multiple redundant ESTs.
Any suggestions or ideas?
Thanks, Dario
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