What are the RNA quality requirements for SeekSpace?
2026-06-23
Answer:
SeekSpace requires relatively high RNA integrity because both spatial localization and single-nucleus transcriptomic analysis depend on detectable RNA signals.
Recommended RNA quality thresholds
RNA Quality | Recommendation |
RIN/RQN ≥ 7 | High-quality RNA; recommended for standard experiments |
6 ≤ RIN/RQN < 7 | Mild degradation risk; valuable or difficult-to-obtain samples may still be attempted cautiously |
RIN/RQN < 6 | Significant RNA degradation; not recommended |
Samples with borderline RNA quality (for example, RIN 5–6) are not automatically unusable, but the risk of reduced data quality increases substantially.
Low RNA quality may lead to:
- Reduced gene detection
- Lower UMI counts
- Lower Fraction Reads in Cells
- Reduced spatial reconstruction stability
- Increased background RNA signal
RNA QC reflects overall RNA integrity only. Even when global RIN values are acceptable, local tissue regions may still exhibit severe degradation.
Examples include necrotic tumors, calcified tissues, samples with prolonged ischemic time, gastrointestinal tissues, etc.
Therefore, pathological assessment should always be considered alongside RNA QC.
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