Questions and Answers 17 June.pdf
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- Attached to
- Transcriptome Services of RNA samples Federal contract opportunity
- Solicitation number
- 1232SA26Q0705
About this file
This is a Questions and Answers (Q&A) document addressing technical specifications for a research project involving RNA sequencing analysis of tissue samples from goats, sheep, and rodents.
The project requires intestinal tissue samples stored in TRIzol, classified as Biosafety Level 2 (BSL2), with sufficient material to yield greater than 100 micrograms of total RNA (approximately 2 centimeters in length of intestine). Samples may be submitted in up to two batches with variable sample counts per batch. The RNA preprocessing must include ribosomal RNA (rRNA) depletion, and the analysis must provide strand-specific information. Standard differential gene expression analysis is required, including software version documentation, parameters used, raw count tables, FPKM tables, Differentially Expressed Gene (DEG) results, and annotation. Raw sequence data must be deposited to the National Center for Biotechnology Information (NCBI) Sequence Read Archive (SRA) with Principal Investigator permission. The document indicates that tissues may potentially contain parasites, with TRIzol serving as the safety protocol for handling these BSL2 materials.
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Other files for this federal contract opportunity
| File | Type | Posted |
|---|---|---|
| Questions and Answers 23 June.pdf | ||
| Questions and Answers 18 June.pdf | ||
| Solicitation_1232SA26Q0705.pdf |
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Text version
Question: Regarding the tissue samples from goats, sheep, and rodents: Will any of these contain parasites? If so, what specific protocols have been implemented to ensure the tissues are safe for handling?
Answer: Yes. The tissues are stored in TRIzol
Question: What is the biosafety level (BSL) associated with these tissue samples?
Answer: BSL2
Question: What specific type(s) of tissue will you be sending?
Answer: Intestine
Question: What is the expected amount or volume of tissue per sample?
Answer: SuƯicient for >100 ug of total RNA (or ~ 2 cm in length of the intestine)
Question: You mentioned "providing digital gene expression signature profiles with full data analysis." Could you clarify if standard diƯerential gene expression analysis is suƯicient, or if you require any specific downstream analysis beyond that?
Answer: Standard gene expression analysis is suƯicient (must include software version and parameters used, raw count table, FPKM table, DEG results and annotation), but the raw sequence data will need to be deposited to NCBI SRA wit PI’s permission.
Question: Will your project require strand-specific information?
Answer: Yes
Question: Do you plan to send the samples altogether in one batch? If they will be split up, how many batches should we expect, and how many samples will be in each?
Answer: Up to two batches. The number of samples in each batch may vary.
Question: What type of RNA pre-processing is required for your project (e.g., poly-A selection or rRNA depletion)?
Answer: rRNA depletion is required.
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