We have tested SOLiD against Illumina for microRNA quantitation.
Here is my conclusion:
1. Both systems apparently measure the amount of miRNAs quantitatively
2. The SOLiD system outputs 30M sequences per run (high density)
3. The Illumina system outputs 6M sequences per run (standard density)
4. The SOLiD system outputs a number of "isomiRs", which in our analysis are spurious reads due to "overfitting" to the reference genome
5. The Illumina data are easier to analyse (no "color-space" issue)
Recommendation:
If ease of analysis is of importance, Illumina appears as the first choice.
If sequence output is of importance, SOLiD has the lead.
Here is my conclusion:
1. Both systems apparently measure the amount of miRNAs quantitatively
2. The SOLiD system outputs 30M sequences per run (high density)
3. The Illumina system outputs 6M sequences per run (standard density)
4. The SOLiD system outputs a number of "isomiRs", which in our analysis are spurious reads due to "overfitting" to the reference genome
5. The Illumina data are easier to analyse (no "color-space" issue)
Recommendation:
If ease of analysis is of importance, Illumina appears as the first choice.
If sequence output is of importance, SOLiD has the lead.
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