Transcriptome Kits for Gene Expression Analysis by NGS

Ion AmpliSeq Transcriptome Human Gene Expression Kit

Transform your research by targeting >20,000 RefSeq transcripts, starting with as little as 10 ng of RNA input and a fast, FFPE-compatible workflow using the Ion AmpliSeq Transcriptome Human Gene Expression Kit and the Ion GeneStudio S5 series sequencing systems.

  • Achieve cost-effective transcriptome sequencing without waiting weeks to batch samples
  • Perform gene-level expression surveys with as little as 15 minutes of hands-on time for automated library preparation on the Ion Chef system, and go from RNA to gene expression levels in less than 2 days
  • Software tools included for fast and easy analysis of sequencing reads; use your existing downstream microarray or next-generation sequencing (NGS) pipelines for gene-level differential expression data analysis
  • Survey precious FFPE samples with as little as 10 ng of input RNA

Figure 1. Correlation of DEGs between Ion AmpliSeq Human Gene Expression Kit data and whole transcriptome RNA-Seq data equals 0.943.

Is there only one way to do RNA-Seq library prep?

Looking for a gene expression signature in triple-negative breast cancer research samples using the Ion AmpliSeq Transcriptome Human Gene Expression kit? In this video, hear Milan Radovich, PhD, of Indiana University discuss his research on triple-negative breast cancer expression-based gene signatures.

Ion AmpliSeq Transcriptome Mouse Gene Expression Kit

The Ion AmpliSeq Transcriptome Mouse Gene Expression Kit used with the Ion GeneStudio S5 series systems help to enable fast and affordable gene expression analysis from samples limited in quantity. With simultaneous amplification of more than 20,000 RefSeq genes in a single tube, starting from as little as 10 ng of total RNA, this kit can be an important tool in oncology and translational research.

The Ion AmpliSeq Transcriptome Mouse Gene Expression Kit offers:

  • Low sample input—as little as 10 ng of total RNA
  • Fast gene expression profiling with simple workflow—go from RNA to data in <2 days and only ~45 minutes of total hands-on time with the automated workflow of the Ion GeneStudio S5 series and Ion Chef systems
  • Streamlined data analysis—export data with Torrent Suite Software into existing analysis software

Comparison to other transcriptome analysis technologies

Quantitative and differential gene expression analysis is fundamental to many biological research applications including gene regulation analysis, correlating gene expression with phenotypic information, and cellular pathway analysis. Conventional gene expression profiling methods include hybridization-based (microarray) and amplification-based (qRT-PCR) technologies. However, methods present certain limitations:

  • Despite requiring significant amounts of RNA, microarrays remain limited in their sensitivity and specificity
  • Although accepted as the gold standard for gene expression analysis, qRT-PCR is generally low-throughput, and substantial amounts of RNA are required if large numbers of genes are to be tested

As such, both technologies present workflow challenges when analyzing samples that are limited in quantity or quality, such as degraded RNA from FFPE tissues. Targeted sequencing using NGS and the Ion AmpliSeq Transcriptome Human Gene Expression Kit not only provides a representation of absolute expression, but also can identify and quantify low-abundance transcripts quickly and easily for both intact and degraded samples.

Figure 2. Improved gene-level transcript detection using the Ion AmpliSeq Transcriptome Human Gene Expression Kit and the Ion Proton System. A Venn diagram is shown demonstrating the concordance of genes identified by MAQC microarray data and the Ion AmpliSeq Transcriptome Human Gene Expression Kit.

Workflow for the Ion AmpliSeq Transcriptome human and mouse gene expression kits

Amplify >20,000 targets in a single reaction

 

Products:

  • Ion AmpliSeq Transcriptome Human or Mouse Gene Expression Kit

Isothermal amplification with Ion Chef System

 

Products:

  • Ion 540 Kit-Chef

Sequencing using Ion GeneStudio S5 system

 

Products:

  • Ion 540 Chip Kit
  • Run AmpliSeqRNA plug-in to generate simple, easy-to-use read count data files
  • Perform simple statistical analysis or import files into existing microarray analysis pipelines

Ion GeneStudio S5 series systems

The Ion GeneStudio S5 series next-generation sequencing systems enable implementing a simple targeted sequencing workflow in your lab with superior speed, scalability, and affordability. Focus your research efforts on applications that have the potential to be impactful. These NGS systems have a modular build, so your lab has the flexibility to do multiple targeted sequencing applications on a single system.

Ion AmpliSeq Transcriptome Kit ordering information

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