Genexus™ Primer Pool Tubes - FAQs

查看更多产品信息 Genexus™ Primer Pool Tubes - FAQs (A40262)

8 个常见问题解答

How many samples of Oncomine Precision Assay GX can I run on each lane of the GX5 Chip?

The capacity of the GX5 Chip varies depending on the sample type:
- For plasma cfTNA samples, the workflow is configured to accommodate 1 sample per GX5 Chip lane (or 4 samples on a single GX5 Chip).
- For FFPE DNA+RNA samples, the workflow is configured to accommodate 4 samples per GX5 Chip lane.
- For FFPE DNA-only or RNA-only samples, the workflow is configured to accommodate 8 samples per GX5 Chip lane.

How many sequencing reactions can I perform with Oncomine Precision Assay GX (Cat. No. A44350)?

The maximum number of samples that can be analyzed per kit depends upon the type of analysis that you want to perform. Each kit provides the targeted pancancer panel and library reagents sufficient to perform up to 32 sequencing reactions on the Genexus Integrated Sequencer.

- Simultaneous DNA- and RNA-based variant analysis for up to 16 FFPE tissue samples (one DNA reaction and one RNA reaction per sample)
- DNA-only or RNA-only variant analysis for up to 32 FFPE tissue samples
- Cell-free TNA (cfTNA) variant analysis (combined DNA and RNA) for up to 32 plasma samples

How much of each sample do I need for the Oncomine Precision Assay GX?

For solid tumor samples, the optimal input amount is 10 ng with validated input in the range of 5-15 ng. For liquid biopsy samples, the optimal input amount is 20 ng with validated input in the range of 5-40 ng.

For optimal results, load 20 µL of input with a concentration of ≥0.67 ng/µL for FFPE DNA and FFPE RNA samples and 20 µL of input with a concentration of ≥1.33 ng/µL for cfTNA samples. If the concentration of the sample is lower than optimal, use as much input as possible for each reaction.

What controls should I use with Oncomine Precision Assay GX?

Here are the various controls we recommend depending upon the starting material:

FFPE DNA samples
- Structural Multiplex Reference Standard (FFPE), Cat. No. HD789 (Horizon™)
- EGFR Gene-Specific Multiplex Reference Standard (FFPE) 5% AF, Cat. No. HD300 (Horizon™)
- KRAS Gene-Specific Multiplex Reference Standard (FFPE), Cat. No. HD301 (Horizon™)
- Seraseq® Lung & Brain CNV Mix, + 3 copies, Cat. No. 0710-0414 (SeraCare®)
- Seraseq® Breast CNV Mix, + 6 copies, Cat. No. 0710-0412 (SeraCare®)

FFPE RNA samples
- Seraseq® FFPE Tumor Fusion RNA v4 Reference Material, Cat. No. 0710-0496 (SeraCare®)
- Seraseq® FFPE NTRK Fusion RNA Reference Material, Cat. No. 0710-1031 (SeraCare®)

cfTNA samples
- Multiplex I cfDNA Reference Standard Set, Cat. No. HD780 (Horizon™)

Which sample types can I use with Oncomine Precision Assay GX?

Oncomine Precision Assay GX is compatible with solid tumor samples (FFPE DNA or FFPE RNA) as well as liquid biopsy samples (cfTNA).

Which regions are targeted with Oncomine Precision Assay GX?

Oncomine Precision Assay GX is designed for the detection of biomarkers in genes such as EGFR, BRAF, KRAS, ALK, ROS1, NTRK, RET, HER2. The assay analyzes 78 variants, including mutations (45), CNVs (14), and fusion variants (19), across 50 key genes. Included are tumor suppressor genes such as TP53, cancer drivers, and resistance mutations. Content has been carefully curated to include all relevant targets and targets of emerging importance in precision oncology clinical research.

What is included in Oncomine Precision Assay GX (Cat. No. A46291)?

Oncomine Precision Assay GX (Cat. No. A46291) includes the following:
- OPA Pool 1 panel (Part No. A44350)
- Genexus Strip 1, quantity of 8 strips (Part No. A46812)
- Genexus Strip 2-HD, quantity of 8 strips (Part No. A46814)
- The OPA Pool 1 is provided in 8 pairs of tubes, where each tube pair contains one tube with forward (FWD) primers and one tube with reverse (REV) primers.

What is contained in Genexus Primer Pool Tubes (Cat. No. A40262)?

The Genexus Primer Pool Tubes kit contains 50 empty assemblies (2 tubes/assembly) of the custom tubes required to deliver primer oligos into the automated library preparation reaction. Each assembly is serialized for traceability and can be used with Ion AmpliSeq- and Ion AmpliSeq HD-based assays. Pipet an aliquot of panel primers from a custom panel or Ion AmpliSeq On-Demand Panel to run the assay on the Genexus Integrated Sequencer. The kit also contains a bag of 100 caps.

Note:
- Assays using Ion AmpliSeq chemistry have primer pools that are loaded in capped tubes in position 1 of the primer pool tube carriers. Empty uncapped tubes are loaded in position 2.
- Assays using Ion AmpliSeq HD chemistry have FWD and REV primer pools that are loaded in capped tubes in both positions of the primer pool tube carrier.

Find additional tips, troubleshooting help, and resources within our Next-Generation Sequencing Support Center.