Timeline for Difference between de novo transcriptome assembly methods
Current License: CC BY-SA 3.0
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| Jan 4, 2018 at 14:22 | comment | added | heathobrien | Happy to help. It's certainly possible that some novel transcripts will be real, especially if your experimental setup is novel, but validation is likely to be a major bottleneck. In my opinion, short reads are really only suitable for quantification of known transcripts. Transcript discovery is much more effective with long read sequencing technologies like PACBIO Iso-Seq or Oxford Nanopre. | |
| Jan 4, 2018 at 12:39 | comment | added | kaka01 | Thanks for the answer. I agree for the first point. For the second point, I partially agree as I think we can always find some novel transcripts in the case of uncovered condition/localisation (as my comment to Devon's answer). I hope "vast majority" here means that there could still be a few out of thousands that are indeed biologically relevant. ;) | |
| Jan 3, 2018 at 16:06 | history | answered | heathobrien | CC BY-SA 3.0 |