Throughput flexibility of the Ion S5 Systems

The Ion S5 and Ion S5 XL next-generation sequencing (NGS) systems now support four different sequencing chip types that scale to various levels of sample throughput, enabling a wide range of research applications. Select from various Ion chips to sequence a throughput range from 2M to 80M reads per run using just one instrument. Simply choose the chip type that matches your throughput and application needs. 

This throughput flexibility enables cost-effective analysis of one to hundreds of samples and reduces the need to batch samples, helping make your workflow more efficient and your time to results faster.

View and order Chip and Kit Products for the Ion S5 System ››

New: Ion 510 Chip for the Ion S5 System

The new Ion 510 Chip generates 2-3 million sequencing reads on the Ion S5 System using the automated workflow of the Ion Chef System. The Ion 510 Chip is the fourth addition to the Ion S5 System chip series, allowing scalability with a single instrument for clinical research applications.

The Ion 510 Chip for the Ion S5 System offers: 

  • Greater scalability of the Ion S5 System—Ion 510 Chip is ideal for smaller targeted resequencing projects in inherited disease research, oncology research, or preimplantation genetic research
  • Faster time from samples to results—analysis time for Ion 510 Chip is shorter than for the other Ion S5 System sequencing chips and the need for batching of samples is reduced

Learn more about Ion S5 System   View Ion S5 specifications ›

 Ion S5 specifications
 Ion S5 brochure

What Ion S5 and Ion S5 XL System users say about throughput flexibility
“I need to be able to vary the number and type of samples I put onto a run in any given week, but not compromise on cost per sample. If we have a lower number of samples we can run them on the smaller-throughput chip. The Ion S5 XL System offers this flexibility.” 

— Dr. Jean Francois Laes, Chief Technology Office, OncoDNA, Belgium

“[The Ion S5 XL System] is so flexible with different chip types and outputs. You can use it for small sequencing projects up to quite large projects so you really have the flexibility that was not possible with previous systems.”  

— Inger Jonasson, Laboratory Manager, Uppsala University Genome Center, Sweden


Choosing the right chip type for your throughput/application

Research area Example of our popular panels and applications Panel description Number of samples per run 
Ion 510 Chip
2-3 M reads
Ion 520 Chip
4-6 M reads
Ion 530 Chip
15-20 M reads
Ion 540 Chip
60-80 M reads
Cancer Research Ion AmpliSeqCancer Hotspot Panel v2 Identify cancer hotspot SNVs from 10 ng of FFPE derived DNA 4 8 26 84
Oncomine Focus Assay  Identify solid tumor-relevant SNVs, indels, CNVs, and gene fusions from 52 genes in a single workflow from FFPE samples 4 8 26 NA
Oncomine Comprehensive Assay v3 Enable biomarker discovery of SNVs and indels and full gene sequencing from 161 genes in a single workflow from FFPE samples NA NA NA 8
Oncomine Lung cfDNA Assay Detect rare somatic mutations down to 0.1% in genes relevant to non-small cell lung cancer using one tube of blood NA NA 6 24
Oncomine Immune Response Research Assay Use targeted gene expression assay to interrogate genes  involved in immune response pathways NA 4 8 NA
Gene expression  Ion Total RNA-seq Kit v2 Analyze whole transcriptome with strand specific RNA sequencing.  NA NA NA 2
Ion AmpliSeq Transcriptome Human Gene Expression Kit Research global gene expression levels from 10 ng of FFPE RNA NA NA 2 8
Inherited Disease Research Ion AmpliSeq Exome RDY Panel  Discover SNPs, indels, and CNVs for research of rare or unknown disorders by whole-exome sequencing NA NA NA 2
Ion AmpliSeq Pharmacogenomics Research Panel (40 genes)* Investigate known variants associated with drug metabolism 48 96 384 384
Ion AmpliSeq On-Demand Panel  Discover variants in genes known to be most relevant in inherited disease research Up to 384 (varies by number of genes in panel)
Reproductive Health  Ion ReproSeq PGS on Ion S5 System Detect aneupoloidy using DNA from single or multiple cells biopsied from preimplantation embryos 16 24 96 NA
Infectious Disease Research Ion AmpliSeq
TB Research Panel
Identify variants in genes associated with antimicrobial resistance in Mycobacterium tuberculosis (TB) 48 84 272 384
Ion AmpliSeq Ebola Research Panel Identify the presence of Ebola virus quickly, accurately, and cost-effectively  48 84 272 384
Ion 16S Metagenomics Kit Identify bacterial species in mixed samples  24 48 192 NA

*Assuming 400X coverage

Ion S5 System applications