GeneMind has collaborated with QIAGEN to validate multiple mature NGS solutions from QIAGEN based on the GeneMind SURFSeq 5000* and GenoLab M* sequencing platforms. The test results demonstrate high compatibility between the GeneMind sequencing platforms and QIAGEN NGS solutions with high specificity, uniform genome coverage, and consistent variant detection. Both parties will use this cooperative testing as an opportunity to jointly provide comprehensive NGS solutions to global customers, aiming to accelerate the discovery of genomic applications in the scientific research, improve cost efficiency, and shorten experimental TAT.
GeneMind & QIAGEN NGS Solution Workflow
Validate Libraries and Sequencing Strategy
The test quality Q40 of the SURFSeq 5000* has reached 90%, and the error rate is as low as 5% (0.05%), leading the data quality in the NGS field. SURFSeq 5000* has a significant advantage on the startup price when compared with the mainstream sequencing platforms. GenoLab M has excellent data quality and flexible throughput (18Gb-300Gb), allowing end users to freely choose the appropriate throughput according to the relevant application scenarios.
| Library Type | Library Kit | Sequencing Platform | Read length | Data Output (M) | Q30(%) | Data Analaysis |
| Amplicon Library | QIAseq Targeted DNA Panel | SURFSeq 5000 | FCH PE150 | 2406.53 | 94.75 | QIAGEN CLC Genomics Workbench Premium |
| WGS Library | QIAseq FX DNA Library Kit | |||||
| miRNA Library | QIAseq miRNA Library Kit | |||||
| Amplicon Library | QIAseq Targeted DNA Panel | GenoLab M | FCH PE150 | 657.24 | 90.19 | |
| WGS Library | QIAseq FX DNA Library Kit | |||||
| miRNA Library | QIAseq miRNA Library Kit |
Validation Results
（1）High specificity in detecting DNA mutations
QIAGEN selected QIAseq Targeted DNA Panel for testing based on the GeneMind sequencing platform, and the test results showed that On target rate of 90%, the uniformity was good, and mutation sites could be detected. The detection results of VAF(%) mutations in the two sequencing platforms of GeneMind also showed high consistency. The sequencing quality of the common sequence region in the amplicon library meet the expectation.
（2）High Genome Coverage
The WGS library prepared by QIAseq FX DNA Library Kit based on GeneMind sequencing platforms have the same sequencing coverage and average degree as other mainstream platforms. QIAseq FX supports a wide sample starting size of 20 pg-1 μg, eliminates the need for purification between fragmentation and splicing reactions, and is independent of gene sequences to prepare gene libraries with the lowest G/C bias, especially suitable for a wide variety of genomes with high complexity.
（3）High Consistent with Other Mainstream Platforms
Small RNA libraries can be sequenced only by SE75, but considering the cost and convenience of sequencing, PE150 is generally selected. In this test, we using PE150 strategy, and choose R1 75bp of data for deep analysis. The test results showed that the miRNA detection ratio of GeneMind sequencing platforms were highly consistent with other mainstream platforms, and the miRNA detection ratio and expression level were still relatively consistent among GenoLab M* and SURFSeq 5000*.
Comprehensive Bioinformatics Solutions
LightSpeed module based on QIAGEN CLC Genomics Workbench Premium enables GeneMind related users to perform cost-effective whole genome sequencing (WGS) secondary analyses with shorter TAT. QCI Interpret is a fully customizable variant interpretation program that annotates and rates variants for tumors and genetic diseases using NGS tests and has interpreted more than 3 million reports to date.
*Unless otherwise informed, GeneMind sequencing platform and related sequencing reagents are not available in USA, Canada, Australia, Japan, Singapore, Western Europe, Southern Europe and Nordic countries yet.
