From Sample to Insight: Streamline Your Oncology Research with Ion GeneStudio S5 systems and Oncomine Assays

Fast, scalable NGS systems for broad applications

Thermo Fisher Scientific offers complete, end-to-end next-generation sequencing (NGS) research solutions on the Ion GeneStudio S5 systems to detect relevant biomarkers in oncology with exceptional speed and accuracy.

 

The breadth of ready-to-use Ion Torrent Oncomine NGS assays spans from targeted to comprehensive panels for solid tumors and hematological malignancies. Oncomine tumor-specific panels provide additional customizable assays created from a curated inventory of pretested genes, including RNA fusions as optional targets.

 

These NGS assays are sensitive and easy to implement for laboratory use, and come with automation, bioinformatics, and reporting capabilities to enable sample-to-report results in a matter of days.


Solid tumor research: Oncomine FFPE tissue assays for genomic profiling

Advancements in precision medicine are driving the need for NGS, as oncology research continues to explore the utility of targeted therapies and immunotherapies. NGS facilitates the simultaneous analysis of a broad range of biomarkers in one test to help maximize insights into the underlying oncogenic drivers in a timely manner.

Oncomine NGS assays for formalin-fixed, paraffin-embedded (FFPE) tissue samples span from focused to comprehensive panels to meet your laboratory research needs, even at varying levels of NGS experience. Regardless of panel size, they offer an end-to-end solution for broad genomic profiling of solid tumors with easy and automated workflows, fast results, and high success rates, even for challenging samples.

 

  • Easy—90% less hands-on time compared to hybrid capture-based NGS assays, which require labor-intensive steps*
  • Fast—three-day NGS results enabled by Ion Torrent technology for fast turnaround times when time matters for important insights
  • Robust—around 94−97% success rate based on Ion AmpliSeq technology with low sample input requirements for more reliable results [1,2]

* One hour of hands-on time needed for the Oncomine Comprehensive Assay Plus for library preparation and sequencing compared to competitor literature stating that 10.5 hours are needed for a manual workflow, current as of September 2026.

Oncomine assays for FFPE tissue genomic profiling in solid tumors

**Timing varies by the number of samples, sample type, and instrument used.


Solid tumor research: Oncomine cell-free assays for liquid biopsy research

While tissue NGS is the standard for gaining insights into the biology of a tumor, liquid biopsy–based NGS is emerging as a highly sensitive method to understand resistance mechanisms as a tumor evolves. Liquid biopsies are minimally invasive and may be used as an alternative when tissue samples are not available. Moreover, liquid biopsy testing may complement tissue testing to better understand inter- and intra-tumor heterogeneity. Ion Torrent Oncomine cell-free assays can help lead to important insights from liquid samples, including blood, bile, cerebrospinal fluid, and urine.

 

  • A broad range of NGS assays for research applications across multiple solid tumor types
  • Easy, fast, and automated workflows to help minimize hands‑on time and maximize efficiency
  • Integrated data analysis and reporting tools for easy data interpretation

Oncomine cell-free assays for liquid biopsy clinical research

* Input recommended to achieve 0.1% limit of detection (LOD) for SNVs and indels. Lower amounts can be used.

** Timing varies by the number of samples, sample type, and instrument used.


Solid tumor research: Oncomine assays for homologous recombination research

Homologous recombination deficiency (HRD) is a phenotype that is characterized by the inability of a cell to effectively repair DNA double-stranded breaks using the homologous recombination repair (HRR) pathway. HRD is becoming more relevant in research applications, especially in ovarian, breast, prostate, and pancreatic cancers because of HRD-positive tumors are sensitive to platinum analogs and poly (adenosine diphosphate-ribose) polymerase (PARP) inhibitors, a class of anticancer agents that exhibit synthetic lethality when applied to cells defective in the HRR pathway.

 

Oncomine assays provide tools for identifying both causes and consequences of HRD.

 

  • Complete end-to-end NGS workflows for precision oncology research
  • Low sample input requirements help ensure smaller samples, and thus more samples can be tested
  • Highly automated with a complete bioinformatics solution, including reporting, to empower HRD assessment in your laboratory

Oncomine assays for HRD research

*Timing varies by the number of samples, sample type, and instrument used


Hemato-oncology research: Oncomine hemato-oncology assays for genomic profiling

Explore our comprehensive portfolio of NGS testing solutions designed to enhance your understanding of hematological malignancies. Our assays support multiple research applications for the analysis of myeloid and lymphoid malignancy samples.

 

  • Rapid and comprehensive detection—detect multiple relevant and novel alterations from DNA and RNA inputs, with results typically available in just 3 days
  • Efficient workflows—easily transition from sample to annotated variant report with our integrated and automated workflows, significantly reducing hands-on time
  • An extensive assay menu—access a broad selection of assays tailored for key hemato-oncology genomic profiling applications, meeting all the needs of your laboratory

Oncomine and Ion AmpliSeq hemato-oncology research assays

*Timing varies by the number of samples, sample type, and instrument used.


Hemato-oncology research: Oncomine immune repertoire research assays

Ion Torrent Oncomine immune repertoire research assays offer a robust suite of solutions for profiling the immune repertoire. They offer highly sensitive NGS capabilities to accurately assess clonality and detect biomarkers associated with MRD across various lymphoid malignancy sample types.

 

  • Increase clone detection—sequence multiple B cell and T cell receptor targets in a single reaction to enhance clone detection rates
  • Ultrasensitive analysis—identify rare clones for MRD analysis with an ultralow LOD down to 10–6
  • Precise SHM measurement—accurately measure the level of somatic hypermutation (SHM) in immunoglobulin heavy chain variable (IGHV) genes, leveraging the ultralow substitution error rate of Ion GeneStudio S5 systems

Oncomine immune repertoire assay summary

* PBLs: peripheral blood leukocytes.

* * PBMCs: peripheral blood mononuclear cells.


Custom assays: Oncomine tumor-specific panels for cancer research

Ion Torrent Oncomine tumor-specific panels (TSPs) are small, curated panels with verified performance complementing the portfolio of Oncomine assays. They are part of an end-to-end solution for clinical cancer research on specific tumors, such as bladder, prostate, melanoma, and others, from FFPE tissue samples.

 

  • Small, tumor-specific panels with >300 pretested genes and fusion drivers from which to select
  • Low sample input requirements and robust performance from FFPE tissue samples
  • An end-to-end workflow including bioinformatics and a reporting solution on Ion Reporter Software
  • Specialized support team assistance for assay verification

 

Oncomine TSPs are predesigned, web-lab tested, and verified to work with Ion GeneStudio S5 systems. Select from the following panels or create your own.

Additional custom NGS testing solutions

Need something else? If there is not an Oncomine assay or panel available that is right for you, our custom menu services can help. Whether you are interested in just a few regions or hundreds of targets, custom Ion AmpliSeq panels can be designed to meet your NGS testing needs.

 

You can get help selecting the custom panel type and design strategy that best fit your needs by using the Ion AmpliSeq Designer online tool at ampliseq.com or by talking to one of our knowledgeable representatives.


Service and support options for Oncomine Solutions users

Thermo Fisher Scientific is dedicated to providing exceptional products and services to our customers. As an Oncomine Solutions user, you have access to a worldwide team committed to enabling NGS testing to a broad spectrum of oncology research labs.

 

Our service and support teams enable our users across the customer support continuum. Whether you are a new customer in need of instrument set-up assistance or an established user looking to troubleshoot, add a new assay to your workflow, or perform an analytical validation, we are with you every step of the way.

  • Support from a single source—no need to coordinate with multiple vendors
  • Several support options to tailor-fit your experience to your lab’s needs
  • Instrument and workflow expertise

For Research Use Only. Not for use in diagnostic procedures.

References

1. Jantus-Lewintre E, Rappa A, Ruano D et al. (2025) Multicenter in-house evaluation of an amplicon-based next-generation sequencing panel for comprehensive molecular profiling. Mol Diagn Ther 29(2):249–261.

2. Campbell, A (2025) Reliable results, rapid delivery: Performance evaluation of Oncomine Comprehensive Assay Plus and the Ion Torrent Genexus System. AMP Workshop.

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