HEAT-Seq Oncology Panel

Product Overview

The HEAT-Seq Oncology Panel targets the coding region of 60 common oncogenes and is ideal for new variant discovery and validation.

ABL1 EZH2 KDR PDGFRA
AKT1 FBXW7 KIT PIK3CA
ALK FGFR1 KRAS PTEN
APC FGFR2 MAP2K1 PTPN11
ATM FGFR3 MAP2k4 RB1
BRAF FLT3 MET RET
BRCA1 GNA11 MLH1 RUNX1
BRCA2 GNAQ MPL SMAD4
CDH1 GNAS MSH2 SMARCB1
CDKN2A HNF1A MSH6 SMO
CSF1R HRAS NF1 SRC
CTNNB1 IDH1 NF2 STK11
EGFR IDH2 NOTCH1 TERT
ERBB2 JAK2 NPM1 TP53
ERBB4 JAK3 NRAS VHL

Table 1: HEAT-Seq Oncology Panel genes

Benefits

  • Experience a simple workflow: Using HEAT-Seq Reagents, generate sequencing-ready DNA from sample DNA in a single tube with just two hours of hands-on time.
  • Gain greater clarity into sample complexity: Have greater confidence in your discovery process and avoid process errors or bias introduced prior to sequencing. Molecular barcoding made possible by the UIDs present in the HEAT-Seq probes allow you to detect and remove PCR duplicates or other unwanted reads. This means you can confidently discern between a biological replicate of significance and a process artifact.                                                                                            
  • Maximize variant detection over a wide range of allelic frequencies: Leverage the UIDs to enable confident variant detection without the need for deep sequencing
  • Remove false positives for greater confidence: Due to the stringent removal of amplification duplicates and process artifacts, sequencing and other errors are minimized. 

Product Performance

The HEAT-Seq Oncology Panel provides reliable overall performance and strong detection of known SNPs.
 

HSQ onco general

Figure 1: HEAT-Seq Oncology Panel Performance
The HEAT-Seq Oncology Panel was tested using Coriell HapMap 12878 DNA. Accuracy, reliability and uniformity are demonstrated across many replicates. Each replicate was subsampled to 2 million reads, and yielded a mean coverage across the target of 163X. Uniformity is defined is the percentage of probes giving coverage that is greater than or equal to 20% of the mean.

HSQ Onco Accuracy

Figure 2: HEAT-Seq Oncology Panel Variant Detection
The HEAT-Seq Oncology Panel was used to measure allele frequency in a sample of formalin-compromised DNA (Quantitative Multiplex Reference Standard, HD-C749, Horizon Discovery) to simulate the effects of FFPE storage and extraction. Detection of variants at known frequencies between 0.9% and 25% is demonstrated with high correlation. Each replicate was tested using 250ng of DNA and data was subsampled to 2 million reads per sample.

Chromosome

Coordinate

Expected variant MAF

Average variant MAF detected

Total False Positives

chr1

115256529

12.5

6%

0

chr3

29443695

8.75

9%

0

chr3

178936091

17.5

15%

0

chr4

178952085

10

7%

0

chr7

55241707

24.5

24%

0

chr7

55259515

0.9

1%

0

chr7

140453136

2.8

2%

0

chr7

140453136

10.7

12%

0

chr12

80409488

15

12%

0

chr12

123279677

6.25

6%

0

         

Figure 3: HEAT-Seq Oncology Panel Specificity
Using UIDs to remove duplicates and artifacts enables the accurate detection of variants at a wide range of frequencies and leads to an extremely low false-positive rate.

Design Files

The design and annotation files provide information about genomic regions covered by the capture probes and the genes included in these regions. These files were designed for use with the following Roche NimbleGen products:

  • HEAT-Seq Oncology Panel, 24 Reactions (Catalog No. 07757042001)
  • HEAT-Seq Oncology Panel, 96 Reactions (Catalog No. 07768605001)
 
 
 

Demo Data

Demo data is available for evaluation. Please contact your country Roche representative

Product Description

The HEAT-Seq Oncology Panel contains 5,144 probes, and has a capture target of approximately 245 Kb across 60 commonly targeted oncogenes.

Description Catalog Number Pack Size
HEAT-Seq Oncology Panel 07757042001 24 Reactions
HEAT-Seq Oncology Panel 07768605001 96 Reactions

Please Contact Us for ordering and questions

For life science research only. Not for use in diagnostic procedures. Unless otherwise stated in references, all data on file.

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