Transcriptome-based RNA sequencing Flashcards
With xT do we also transcribe the RNA?
Yes
Through which mechanism?
Transcriptome based sequencing
What metrics do we look for?
- Genes
- Depth of coverage
- Alterations reported
- Specimen requirements
- Tumor content
Gene count?
20,000
Depth of coverage?
50 million reads per sample
Alterations reported?
fusions rearrangements
specimen requirements?
- Nothing additional is required beyond what is submitted for tumor.
- RNA seq is only run if enough tumor is available following the DNA sequencing.
Why do we look at the RNA?
To better identify some of the translocations and if that fusion is truly “functional” .
What is bated fusion?
looks for common and known gene fusions.
what is transcriptome- based RNA sequencing?
looks across the RNA transcriptome for both common and novel gene fusions.
Transcriptome-based sequencing is going to provide the physician with more clinically relevant information. True or false?
True
Tempus Transcriptome-Based RNA sequencing facts. What are they?
See the following cards:
1.)
clinically validated for unbiased gene fusion calling
2.)
comprehensively captures all gene fusions.
3.)
some elements of RNA seq. used for research-only purposes
4.)
Tempus has the world’s largest RNA seq. database!
How can the test analyze proteins?
through IHC
There are two IHC add on tests. What are they?
- ) MMR IHC
2. ) PD-L1IHC
if PD-L1IHC is ordered, what other options can they choose?
- The clones
What is the default “clone” on the testing option section
22c3
If the clinician orders PD-L1, what additional requirements are needed for this test to be run?
3 additional FFPE unstained slides with 20% tumor content.
What about for MMR?
6 additional FFPE unstained slides with 20% tumor content.
What does immunohistochemistry examine?
protein expression
Why would a doctor order the additional PD-L1 and MMR IHC options?
to help predict patient response to checkpoint inhibitors.
What does a T cell try to recognize on a tumor cell in order to destroy it?
An antigen
What are PD-1 and PD-L1 inhibitors again?
-Checkpoint inhibitor drugs, line of immunotherapy.
What do the checkpoint inhibitors do?
Block the tumors protein that’s attaching to the T-Cell, inhibit the tumor growth, and stop replication and spread of cancer.
