12505B23Q0136 - QAs.pdf
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- Illumina RNA Sequencing of Alfalfa
- Solicitation number
- 12505B23Q0136
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Other files
| File | Type | Posted |
|---|---|---|
| Wage Determination.pdf | ||
| Performance Work Statement - Samac RNA_Seq FY23.pdf | ||
| 23Q0136 - Provisions and Clauses.pdf |
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12505B23Q0136 – Illumina Sequencing of Alfalfa
Ques on 1: The number of lanes/depth of sequencing per sample is not clear to us?
Are you asking for 350 million reads total (2.69M reads per sample) or are you asking for our recommenda on of sequencing depth using a specific flow cell? Normally for more advanced species we would be asking for as many as 30‐50M reads per sample to do ideal bioinforma cs and then we would choose the most cost effec ve solu on.
The specifica on for sequencing in these RNA samples ie 2.69M reads per sample apparently specified does not seem sufficient for the bioinforma cs request of Differen al Expression, documen ng
Alterna ve Splicing events and Gene Ontology analysis. Some papers we have looked at iden fy many thousands of genes being ac vely transcribed and it is our opinion that 350M reads for 135 samples is not sufficient.
Also, is there a reference genome available? Could you please tell us the genus and species of this strain?
Answer: We are reques ng 30‐50M reads per sample.
The plant is Medicago sa va (alfalfa). There is a reference genome available.
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