Shop All Library Preparation Kits for Sequencing

Ion AmpliSeq™ Exome RDY Kit 1x8 (Ion Torrent™)

The Ion AmpliSeq Exome RDY Kit enables the fastest and simplest method of exome enrichment, now even easier with oligo pools for ultra-high multiplex PCR exome enrichment dried down in a 96-well plate. With half the number of target amplification pipetting steps compared to the original protocol and the elimination of small pipetting volumes, exome libraries can now be produced with unparalleled ease in under six hours with less than 50 minutes of hands-on time. Also, the Ion AmpliSeq Exome RDY Kit is compatible with the Ion Library Equalizer Kit for ease in library normalization. Leveraging the ultra-high multiplex PCR approach of Ion AmpliSeq technology with template preparation on the Ion Chef System and sequencing on an Ion Proton or Ion S5 System, the Ion AmpliSeq Exome RDY Kit allows for rapid sequencing of key exonic regions of the genome, going from DNA to variants in just two days.

The Ion AmpliSeq Exome RDY Kit 1x8 configuration includes the following components for eight exomes (two exomes per Ion PI v3 chip or Ion 540 Chip, and four exomes per Ion 550 Chip):

• Ion AmpliSeq Exome RDY panel: dried down oligo pools/primers in one 96-well plate with all eight rows filled (1x8), for ultra-high multiplex PCR enrichment of the exonic regions of the genome
• Ion AmpliSeq Library Kit Plus (8 exomes) for robust library preparation of Ion AmpliSeq Exome libraries using Ion AmpliSeq technology

The Ion AmpliSeq Exome RDY Kit enables you to:
• Simplify exome enrichment through the combination of dried-down primers and the Ion AmpliSeq workflow, with less than one hour of hands-on time and less than six hours total time
• Accelerate your disease research with rapid exome sequencing—DNA to variants in just two days
• Access affordable exome sequencing—no need to wait and batch dozens of samples or otherwise spend the high price of a lower-throughput run
• Maximize sequencing efficiency due to high performance specifications—designs covering >97% of the Consensus Coding Sequences (CCDS), >90% base on-target, and >90% coverage uniformity
• Identify annotated, filtered variants without bioinformatics expertise through fully integrated analysis with Torrent Suite and Ion Reporter software

Quickest exome enrichment with unprecedented simplicity
The Ion AmpliSeq Exome RDY Kit 1x8 configuration provides unmatched simplicity for exome enrichment. Primers have been dried down in a 96-well plate, using the 12 wells of a single row for each of the 12 primer pools, leading to the use of one row per exome. The Ion AmpliSeq Exome RDY S5 Kit 1x8 configuration contains a single 96-well plate, containing eight rows pre-filled with dried down primers, sufficient to prepare eight exome libraries. Additionally, the dried-down primers contain a light blue dye for easy identification of used or occupied rows. With a workflow requiring less than 50 minutes of hands-on time and no centrifugation steps, the kit enables exome library preparation in less than six hours. Additionally, the Ion AmpliSeq Exome RDY Kit maintains a low input requirement of 50 ng DNA. With the included Ion AmpliSeq Library Kit Plus, exome library preparation is more robust, resulting in higher uniformity and consistently higher library yield when performing library amplification. Also, the Ion AmpliSeq Exome RDY Kit is now compatible with the Ion Library Equalizer Kit for ultimate ease in library normalization.

Lowest cost per exome using a benchtop sequencer
The Ion AmpliSeq Exome RDY Kit allows disease researchers to access affordable exome sequencing on their benchtops without long turn-around times or the sample batching normally required to achieve a low cost per sample. Using the Ion AmpliSeq Exome RDY Kit with the Ion Proton or Ion S5 System enables you to go from DNA to variants in as little as two days. Additionally, with the most uniform exome enrichment covering >97% of the CCDS, you can achieve the most efficient sequencing with two exomes per Ion PI or Ion 540 Chip and four exomes per Ion 550 Chip.

Fully integrated analysis without bioinformatics expertise
Use of the kit with Torrent Suite and Ion Reporter software provides a simple and streamlined analysis workflow that automates the identification of your variants of interest without needing the expertise or infrastructure of a full bioinformatics team. Additionally, the Ion Proton or Ion S5 Sequencer along with Ion Reporter Software deliver both SNP and indel information along with copy number changes through a single analysis workflow, advancing your human disease research.

Ion AmpliSeq™ Exome RDY Kit 4x2 (Ion Torrent™)

The Ion AmpliSeq Exome RDY Kit enables the fastest and simplest method of exome enrichment, now even easier with oligo pools for ultra-high multiplex PCR exome enrichment dried down in a 96-well plate. With half the number of target amplification pipetting steps compared to the original protocol and the elimination of small pipetting volumes, exome libraries can now be produced with unparalleled ease in under six hours with less than 50 minutes of hands-on time. Also, the Ion AmpliSeq Exome RDY Kit is compatible with the Ion Library Equalizer Kit for ease in library normalization. Leveraging the ultra-high multiplex PCR approach of Ion AmpliSeq technology with template preparation on the Ion Chef System and sequencing on the Ion Proton or Ion GeneStudio S5 next-generation sequencers, the Ion AmpliSeq Exome RDY Kit allows for rapid sequencing of key exonic regions of the genome, going from DNA to variants in just two days.

The Ion AmpliSeq Exome RDY Kit 4x2 configuration includes the following components for eight exomes (two exomes per Ion PI v3 chip or Ion 540 Chip, and four exomes per Ion 550 Chip):

• Ion AmpliSeq Exome RDY panel: dried down oligo pools/primers in four 96-well plates, each with two rows (C and F) filled (4x2), for ultra-high multiplex PCR enrichment of the exonic regions of the genome
• Ion AmpliSeq Library Kit Plus (8 exomes) for robust library preparation of Ion AmpliSeq Exome libraries using Ion AmpliSeq technology

The Ion AmpliSeq Exome RDY Kit enables you to:
• Simplify exome enrichment through the combination of dried-down primers and the Ion AmpliSeq workflow, with less than one hour of hands-on time and less than six hours total time
• Accelerate your disease research with rapid exome sequencing—DNA to variants in just two days
• Access affordable exome sequencing—no need to wait and batch dozens of samples or otherwise spend the high price of a lower-throughput run
• Maximize sequencing efficiency due to high performance specifications—designs covering >97% of the Consensus Coding Sequences (CCDS), >90% base on-target, and >90% coverage uniformity
• Identify annotated, filtered variants without bioinformatics expertise through fully integrated analysis with Torrent Suite and Ion Reporter software

Quickest exome enrichment with unprecedented simplicity
The Ion AmpliSeq Exome RDY Kit 4x2 configuration provides unmatched simplicity for exome enrichment. Primers have been dried down into 96-well plates, using the 12 wells of a single row for each of the 12 primer pools, leading to the use of one row per exome. The Ion AmpliSeq Exome RDY S5 Kit 4x2 configuration contains four 96-well plates, each with two rows pre-filled with dried-down primers, sufficient to prepare eight exome libraries. Additionally, the dried-down primers contain a light blue dye for easy identification of used or occupied rows. With a workflow requiring less than 50 minutes of hands-on time and no centrifugation steps, the kit enables exome library preparation in less than six hours. Additionally, the Ion AmpliSeq Exome RDY Kit maintains a low input requirement of 50 ng DNA. With the included Ion AmpliSeq Library Kit Plus, exome library preparation is more robust, resulting in higher uniformity and consistently higher library yield when performing library amplification. Also, the Ion AmpliSeq Exome RDY Kit is now compatible with the Ion Library Equalizer Kit for ultimate ease in library normalization.

Lowest cost per exome using a benchtop sequencer
The Ion AmpliSeq Exome RDY Kit allows disease researchers to access affordable exome sequencing on their benchtops without long turn-around times or the sample batching normally required to achieve a low cost per sample. Using the Ion AmpliSeq Exome RDY Kit with the Ion Proton or Ion S5 System enables you to go from DNA to variants in as little as two days. Additionally, with the most uniform exome enrichment covering >97% of the CCDS, you can achieve the most efficient sequencing with two exomes per Ion PI or Ion 540 Chip and four exomes per Ion 550 Chip.

Fully integrated analysis without bioinformatics expertise
Use of the kit with Torrent Suite and Ion Reporter software provides a simple and streamlined analysis workflow that automates the identification of your variants of interest without needing the expertise or infrastructure of a full bioinformatics team. Additionally, the Ion Proton or Ion S5 Sequencer along with Ion Reporter Software deliver both SNP and indel information along with copy number changes through a single analysis workflow, advancing your human disease research.

Ion Total RNA-Seq Kit v2 (Ion Torrent™)

The Ion Total RNA-Seq Kit v2 includes the reagents needed to prepare representative cDNA libraries for strand-specific RNA sequencing on the Ion Proton™ or the Ion Personal Genome Machine® (PGM™) systems. The Ion Proton™ System is ideally suited for sequencing the whole transcriptome (ribosomal RNA depleted or polyA), while the Ion PGM™ System is suitable for small RNA, as well as viral and bacterial transcriptomes. Either small RNA (such as microRNA) or whole transcriptome RNA samples can be prepared for next-generation sequencing using the Ion Total RNA-Seq Kit v2. Version 2 of the Ion Total RNA-Seq Kit is an improvement over the first generation kit. The gel size selection step in the small RNA workflow has been replaced with a magnetic bead-based method. Magnetic bead-based purification replaces all of the filter cleanup steps and the total reaction time has been reduced to 6 hours.

Additional Features of the New Ion Total RNA-Seq Kit v2:

• Greater accuracy—SuperScript® VILO™ and Platinum® PCR SuperMix High Fidelity added for highest template fidelity
• Barcode compatible—works with Ion Xpress™ RNA-Seq Barcode 01-16 Kit for multiplexing
• Automation friendly—magnetic bead-based purification simplifies automation of library construction

As with the previous kit, the Ion Total RNA-Seq Kit v2:

• Preserves strand information—all mapped reads are aligned in the direction of transcription relative to the chromosomal strand
• Allows you to choose your workflow—interrogate either small RNA or the whole transcriptome
• Allows you to analyze any type of RNA—supports small RNA, rRNA depleted total RNA, and poly(A) RNA

The Ion Total RNA-Seq Kit v2 is designed to make cDNA library preparation for the Ion Proton™ and PGM™ systems fast and flexible. It can be used to generate a representative cDNA library, flanked by specific sequences necessary for sequencing, from any type of RNA sample.

Designed as a complete solution with a common workflow, the Ion Total RNA-Seq Kit v2 combines optimized reagents and protocols for discovery of small RNAs and isoforms, coding RNA, noncoding RNA, and alternative splice variants.

Small RNA Analysis
During small RNA library construction, the 3' and 5' adaptors are attached directionally and simultaneously. As a by-product of this step, an adaptor:adaptor product may be formed without an RNA insert. This byproduct will amplify during first strand synthesis and PCR. If not removed, > 50% of the reads will be the adaptor dimer. Historically, the only way to separate the adaptor dimer from the wanted small RNA containing library fragments has been through gel size selection. The Ion Total RNA-Seq Kit v2 uses proprietary technology to inhibit cDNA synthesis of the adaptor byproduct, thus allowing cDNA separation with magnetic bead-based technologies. Total reaction time has been reduced from 1.5 days to approximately 6 hours. A separate Magnetic Bead Cleanup Module is included with the kit. Additional modules may be purchased separately.

Start with total RNA containing as little as 5–100 ng of miRNA, or RNA enriched for small RNA containing 1–100 ng of miRNA. The small RNA protocol provides guidance on whether to start with total RNA or RNA enriched for small RNA, based on the small RNA content of your sample. Small RNA enrichment protocols are also provided.

Whole Transcriptome Analysis
The whole transcriptome protocol enables construction of strand-specific libraries in approximately 5 hours. Starting with as little as 100 ng of total RNA, construct a library from 1 ng of poly(A) RNA or 25 ng of rRNA-depleted RNA following the RNA enrichment and library generation protocols provided in the manual. Because the libraries are not limited to cDNA derived only from poly(A) RNA, Ion Total RNA-Seq Kit libraries support a more thorough investigation of transcriptome complexity, capable of characterizing known and undocumented transcripts, including alternative splice variants, fusion transcripts, and SNPs.

Preserve Strand Information
Unlike methods that ligate adapters to double-stranded cDNA, the Ion Total RNA-Seq Kit v2 utilizes proprietary Ambion® technology to attach the adapters in a directional manner that preserves strand information in the resulting libraries. In addition, both the 3' and 5' adapters are attached simultaneously, reducing ligation and clean-up steps.

Preserving strand orientation during library construction helps enable more accurate determination of the structure and expression level of transcripts, and can aid in the discovery of novel transcription regions from both the positive and negative genomic strands.

The Ion Total RNA-Seq Kit v2 is designed to create RNA libraries from up to 12 samples for small RNA or whole transcriptome sequencing on the Ion Proton™ or PGM™ systems.

SGS™ All Species ID Food DNA Analyser Kits (Thermo Scientific™)

Identify meat, plant or fish species present in all food sample types with ready-to-use DNA test kits, software and Ion Torrent NGS technology.

Oncomine™ Immune Response Research Assay - Automated (Ion Torrent™)

The Oncomine™ Immune Response Research Assay is a targeted gene expression assay designed for the Ion™ next-generation sequencing (NGS) platform. This pan-cancer gene expression assay is designed to interrogate the tumor microenvironment to enable mechanistic studies and identification of predictive biomarkers for immunotherapy in retrospective or prospective clinical trial research cohorts. The assay is optimized to measure the expression of genes involved in tumor-immune interactions, including the low-expressing genes involved in inflammatory signaling.

This assay contains the reagents for automated library construction using the Ion Chef™ System and a single pool of primers used to perform multiplex PCR for preparation of amplicon libraries from formalin-fixed paraffin-embedded (FFPE) samples. The assay enables quantitative evaluation of the expression of markers associated with different leukocyte subsets, antigen presentation, checkpoint pathways, and tumor progression. This 400-gene assay is supported with a user-friendly informatics workflow and demonstrates high sensitivity for low-expressing transcripts derived from FFPE samples (request a gene list). The Oncomine Immune Response Research Assay leverages Ion AmpliSeq™ technology to deliver results from as little as 10 ng of total RNA, enabling robust performance from challenging FFPE samples.

Assay workflow
The Oncomine Immune Response Research Assay automated workflow features high sample multiplexing on Ion S5™ sequencing systems. The entire workflow, from sample extraction to results, can be completed in less than 48 hours with less than 45 minutes of hands-on time from DNA to data, and only two pipetting steps per sample. Note: An alternate assay is available (Cat. No. A32881) for the preparation of Ion AmpliSeq libraries in manual mode without use of an Ion Chef System.

Assay performance
• High repeatability and sensitive detection of gene expression across different types of solid tumors
• Low sample input requirement (10 ng of total RNA material)
• High sensitivity detection of low-expressing signaling molecules such as interleukins and interferon gamma
• High sample multiplexing with flexibility to sequence 4, 8, or 32 samples per single run
• Automated workflow that offers sample-to-results in less than 48 hours, with less than 45 minutes hands-on time and only two pipetting steps
• Automated and seamlessly integrated analysis solution
• Interpretation of immune surveillance and tumor progression mechanism with functional annotation of genes and pathways

Informatics
The Oncomine Immune Response Research Assay comes with optimized informatics and visualization software that minimizes the complexity of data analysis. The analysis workflow consists of a data exploration component automated by the Immune Response Torrent Suite™ Plug-in and a two-group differential analysis provided by the Affymetrix™ Transcriptome Analysis Console (TAC). Together these tools offer a streamlined process for common gene expression analyses and exportable data files that are amenable to further exploration with other third-party software. Specifically, these tools provide:
• QC metrics and expression of housekeeping genes to qualify data
• Hierarchical clustering of samples with user-defined gene sets or by all genes on the panel
• Visualization with PCA, heatmaps, and gene expression distribution plots
• Sample correlation using rich correlation plots
• Fold-change estimates in easy-to-use tabular data format (TAC)
• Volcano plots to visualize differentially genes (TAC)

Ion Xpress™ Plus Fragment Library Kit for AB Library Builder™ System (Ion Torrent™)

The Ion Xpress™ Plus Fragment Library Kit for AB Library Builder™ System provides a rapid, flexible, and high-throughput solution for library construction upstream of the semiconductor sequencing workflow. This ready-to-use reagent cartridge simplifies next-generation sequencing by enabling automated DNA fragment library preparation for the Personal Genome Machine® and soon the Proton™ sequencing systems.

This kit contains sample preparation reagents for enzymatic shearing and library construction of 13 DNA libraries for semiconductor sequencing. Use of this reagent cartridge requires the addition of library adapters (sold separately).

This library kit offers:

Simplicity and convenience of automated library preparation upstream of semiconductor sequencing
Superior coverage uniformity for diverse sample types using our proprietary Ion Shear™ Plus chemistry
Lower input requirement providing the ability to make amplification-free libraries from as little as 50 ng of starting DNA
Rapid and flexible workflow producing Ion fragment libraries containing user-selectable and automatically size-selected insert sizes of 100–400 bp in as little as 2 hours
Significant cost savings by removing the need for ancillary shearing devices and size-selection gels
Scalable methodology to meet high-throughput sequencing requirements

With its plug-n-play modular reagent design, this revolutionary kit automates all steps of library creation, including both DNA fragmentation and library size selection, in as little as 2 hours with limited set-up time and minimal subsequent user-intervention. DNA fragmentation is automated with enhanced, proprietary Ion Shear™ DNA fragmentation chemistry to achieve user-selectable inserts of 100–400 bp in length. Size selection of the libraries is performed automatically without the expense or effort of gel-based methods. Alternatively, libraries can be manually size-selected using conventional methods after the automated run. Starting with 50–1000 ng of input DNA, the kit yields significantly higher amounts of library than current manual methods, eliminating the need for PCR amplification (i.e., "amplification-free" libraries) for most sequencing needs.

A Single-Day Workflow: The Next Stage in a Sequencing Revolution
With the ability to prepare up to 13 libraries in a little over 2 hours, the Ion Xpress™ Plus Fragment Library Kit for AB Library Builder™ System is a key step towards automation of the Ion sequencing workflow, making comprehensive analyses of your sample(s) of interest more convenient than ever before. Furthermore, Ion Xpress™ Plus fragment libraries generated using the AB Library Builder™ system exhibit the superb coverage uniformity typically seen with proprietary Ion Shear™ DNA fragmentation chemistry and higher recovery rates than other library construction methodologies. So you can be confident of generating the best data in the shortest time, without the hassle or expense of manual shearing and size selection.

Ion Torrent Sequencing Made Simpler, Faster, and More Affordable
Ion Shear™ Plus DNA fragmentation technology eliminates the need for costly physical shearing devices for most applications and requires as little as 50 ng of sample, accelerating your path to semiconductor sequencing. This flexible technology also provides users the ability to adjust fragmentation and size-selection sizes to accommodate a range of sequencing read lengths depending on their project requirements. This automated library preparation solution provides fast and scalable workflows for sequencing projects requiring low- to high-throughput processing capabilities.

For Research Use Only. Not for human or animal therapeutic or diagnostic use.

Ion Library Equalizer™ Kit (Ion Torrent™)

The Ion Library Equalizer™ Kit is a simple and seamless bead-based solution replacing the need for library quantification and library dilutions for library normalization as required for any next generation sequencing workflow. The Ion Library Equalizer™ Kit helps reduce labor, reagent costs, and further simplifies the Ion semiconductor sequencing workflow for high sample-throughput or barcoded projects, as well as single or low sample number projects.

The kit workflow consists of three simple steps:

1) Library amplification with Equalizer™ Primers
2) Library capture onto Equalizer™ Beads
3) Heat elution of the normalized library using a specially formulated Equalizer™ Elution Buffer

Simple Workflow
• Seamlessly integrates into your existing library preparation workflow
• Reduced pipetting compared to the Agilent 2100 Bioanalyzer®-based workflow
• Faster workflow in high-throughput applications-no need for DNA quantification, calculations, and dilution of DNA libraries
• Minimizes library-to-library variability

Cost Effective
• No additional capital equipment required
• Less expensive than Agilent 2100 Bioanalyzer®-based workflow (up to 10 samples)
• Reduced AMPure® XP reagent usage compared to Agilent 2100 Bioanalyzer®-based workflow
• Long shelf life: up to 18 months
• Convenient 96-reaction kit helps reduce ordering frequency

Flexible
• Compatible with all Ion DNA library kits including Ion AmpliSeq™ DNA panels, Ion fragment library kits, and Ion Xpress™ Barcode adaptors
• Use with a single sample or in a 96-well plate format
• Compatible with 3rd party automated liquid handling systems for integrated library preparation and normalization

Includes:
The Ion Library Equalizer Kit includes the necessary reagents to complete 96 normalization reactions.

Required for Workflow:
Ion AmpliSeq™ Library Kit 2.0
Ion AmpliSeq™ Ready-to-Use Panel or Custom Panel designed via the Ion AmpliSeq™ Designer (www.ampliseq.com)
--OR--
Ion Plus Fragment Library Kit
--OR--
Ion Xpress™ Plus Fragment Library Kit

Optional:
Ion Xpress™ Barcode Adapters Kits

Ion AmpliSeq™ Comprehensive Cancer Panel (Ion Torrent™)

The Ion AmpliSeq™ Comprehensive Cancer Panel provides highly multiplexed target selection of genes implicated in cancer research. Encompassing over 50% of the Wellcome Trust Sanger Institute Cancer Gene Census, this is the most comprehensive cancer gene panel available. With all-exon coverage of 409 genes, the Ion AmpliSeq™ Comprehensive Cancer Panel delivers fast, FFPE-compatible, target selection for a broad survey of key genes for semiconductor sequencing. View the Ion AmpliSeq™ Comprehensive Cancer Panel list of target genes (PDF).

The Ion AmpliSeq™ technology allows ultra-high multiplex PCR combined with targeted sequencing library construction in just 16 hours for over 400 genes. Utilizing only 10 ng of input DNA per primer pool for a total of 40 ng of input DNA, analysis of restricted samples like FFPE samples is possible. The Ion AmpliSeq™ Comprehensive Cancer Panel is optimized for library construction with the Ion AmpliSeq™ Library Kit 2.0. Libraries are then ready for template preparation on the Ion OneTouch™ System and sequencing on the Ion PGM™ Sequencer. The Ion AmpliSeq™ Comprehensive Cancer Panel is not compatible with Ion Ampliseq™ 2.0 Beta Kits.

Features and Benefits:

• Broad survey of 409 key genes in a simple PCR reaction, no additional capital equipment required
• Unmatched plexy of 16,000 primer pairs in only four pools with Ion AmpliSeq™ technology
• Low DNA input of only 40 ng DNA and short amplicons enable FFPE samples and needle biopsies
• Start comprehensive genomic studies quickly with pre-designed primer pools
• Simplify analysis and annotation of variants with Ion Reporter™ software

Comprehensive Gene Content Including Genes from Hotspot Panel
Ion Torrent has designed the most extensive cancer panel available for sequencing with Ion PGM™ and, soon, Ion Proton™ Sequencers. Working with key cancer researchers and reviewing literature and databases, the Ion AmpliSeq™ Comprehensive Cancer Panel was designed to target all exons of key tumor suppressor genes and oncogenes most frequently cited and most frequently mutated. Strategically designed to interrogate CDS and splice variants across multiple gene families simultaneously, pathway-based gene selection profiles mutational spectrum in cancer driver genes and drug targets, along with signaling cascades, apoptosis, DNA repair, transcription regulators, inflammatory response, and growth factor genes in a single assay. Additionally, all genes from the focused Ion AmpliSeq™ Cancer Panel are included in the Ion AmpliSeq™ Comprehensive Cancer Panel providing corresponding complementary data.

Unmatched Level of Multiplex PCR
The Ion AmpliSeq™ Comprehensive Cancer Panel is comprised of four primer pools totaling almost 16,000 primer pairs covering 409 genes-that's approximately 4,000 primer pairs in each pool! Used in conjunction with the Ion AmpliSeq™ Library Kit 2.0, the Ion AmpliSeq™ Comprehensive Cancer Panel maintains high uniformity and specificity at this high plexy, advancing multiplex PCR to new levels.

Over 400 Genes, Only 40 ng DNA Required
While other target selection methods typically require micrograms of DNA input, the Ion AmpliSeq™ Comprehensive Cancer Panel uses only 40 ng DNA. This breakthrough in low DNA input requirement enables the interrogation of restricted samples like formalin-fixed, paraffin-embedded samples (FFPE) and fine needle aspiration biopsies (FNAB). Additionally, shorter amplicon design (average 155 bp) allows for compatibility with degraded samples.

Simplified Target Selection Without Primer Design
With pre-designed primers in the Ion AmpliSeq™ Comprehensive Cancer Panel, researchers can bypass gene selection, primer design, and optimization, and advance straight to generating results for a broad survey of hundreds of genes in key research samples. To further focus your cancer research, you may choose to conduct in-depth somatic variant analysis on a subset of genes or specific cancer subtype. Using Ion AmpliSeq™ Designer, researchers can simply add or subtract genes from this panel to create your own custom panel. The flexibility and scalability of Ion AmpliSeq™ Solutions spans across the Ion AmpliSeq™ Ready-to-use Panels and Ion AmpliSeq™ Custom Panels.

For Research Use Only. Not for any animal or human therapeutic or diagnostic use.

Ion Ampliseq™ Cancer Hotspot Panel v2 Chef-Ready Kit (Ion Torrent™)

The Ion Ampliseq™ Cancer Hotspot Panel v2 Chef-Ready Kit combines a single pool of primers with the reagents necessary to prepare libraries of frequently mutated regions in human cancer genes on the Ion Chef™ System. This automated workflow utilizes the same chemistry as the manual library construction workflow. It provides equivalent or better performance with exceptional reproducibility, on-target reads, and sample balance. Automated production of libraries using the Ion Chef System reduces hands-on time to less than 15 minutes.

The Ion Ampliseq Cancer Hostpot Panel v2 Chef Ready Kit consists of the following components:
• Ion Ampliseq™ Cancer Hotspot Research Panel Primers
• Ion Ampliseq™ Kit for Chef DL8

The simple sample-to-data workflow can be executed in less than two days and offers the following features and benefits:
• Production of high-quality DNA libraries using the Ion Chef System
• Proven performance of Ion Ampliseq™ technology, FFPE compatibility, uniform coverage for efficient sequencing, accurate variant calling, and improved variant detection via Torrent Suite™ Software
• Ability to scale and multiplex on Ion™ chips based on desired throughput needs, driving cost savings and efficiency
• Simplified workflow and reduced hands-on time when used with the Ion Ampliseq™ Direct FFPE DNA Kit
• Low input amount of only 1 ng per sample

Additional mutational content for advancement of cancer research studies
The Ion AmpliSeq Cancer Hotspot Panel v2 is designed to amplify 207 amplicons covering approximately 2,800 COSMIC mutations from 50 oncogenes and tumor suppressor genes. The panel should be used with the Ion AmpliSeq™ Library Kit 2.0.

Minimal hands-on time
Leveraging the automation capabilities of the Ion Chef System, the included Ion AmpliSeq Kit for Chef Kit DL8 enables the reproducible preparation of Ion AmpliSeq amplicon libraries, with less than 15 minutes of hands-on time and only 3 liquid transfer steps. Compatible with 1- and 2-pool Ion AmpliSeq panel designs, the kit automates the preparation of libraries from 8 samples in a single run, delivering a single tube of pooled libraries ready for downstream templating and sequencing. The kit provides sufficient material for the preparation of 32 libraries.

Simplicity and ease-of-use of Ion solutions
Utilizing plug and play, pre-packaged, single-use cartridges and PCR plates for a fully automated workflow, users of all experience levels will find library preparation straightforward with minimal effort. Supplied with barcodes conveniently dried-down in 96-well plates, multiplexing samples is easy and requires no additional pipetting steps.

Collibri™ Stranded RNA Library Prep Kit for Illumina™ Systems (Invitrogen™)

The Invitrogen Collibri Stranded RNA Library Prep Kit for Illumina Systems is designed for robust construction of cDNA libraries for strand-specific RNA sequencing on Illumina next-generation sequencing (NGS) systems. The kit brings together the superior features of SuperScript IV Reverse Transcriptase, Dynabeads magnetic particles, and Platinum SuperFi DNA Polymerase, enabling users to obtain high-quality sequencing-ready libraries.

The Collibri Stranded RNA Library Prep Kit offers:
• Short, automation-friendly workflow. mRNA can be converted to sequencing-ready library within 4.5 hours.
• Inert dyes in the reagents that make it possible to see the progress of library generation without any negative effect on library quality
• Uniform transcript coverage and high transcript detection sensitivity
• High sensitivity of differential gene expression detectio
• >98% strand specificity
• Efficient detection of non-coding RNA

The Collibri Stranded RNA Library Prep Kit is designed for fast and convenient library preparation targeting insert sizes of ~150 bp for mRNA or whole transcriptome libraries with sample inputs of 1–25 ng of mRNA-enriched or ribo-depleted RNA. Single-tube adapter ligation and reverse transcription reactions, as well as magnetic bead-based library purification steps, enable completion of the entire workflow in approximately 4.5 hours. The kit is suitable for various quality RNA samples, including FFPE samples.

For maximum convenience, visual cues of process integrity are included throughout the library prep workflow. Monitor progress of library generation using visual feedback from dyes in critical reagents. The reaction mix changes color in response to the addition of critical components at each step to ensure that library preparation has the highest chance of success. The inert dyes do not interfere with enzymatic reactions and do not compromise sequencing results.

Full-length Illumina-compatible adaptors are introduced by PCR amplification using Platinum SuperFi DNA Polymerase to construct single-indexed libraries compatible with single-read or paired-end sequencing. The Collibri Stranded RNA Library Prep Kit contains 24 or 96 single-indexed barcoded PCR primers (i7) pre-mixed with a universal i5 primer that enables multiplexing of up to 96 libraries. Optimized cleanup steps efficiently remove residual primers and adapter/primer dimers while preserving high library yields.

A related product, the Collibri Library Quantification Kit is recommended for qPCR-based quantification of libraries before proceeding to sequencing.

Applications
The Collibri Stranded RNA Library Prep Kit is recommended for:
• Gene expression studies
• Alternative splicing analysis
• Non-coding RNA detection and discovery
• Gene fusion detection
• Detection of transcript isoforms

Oncomine™ Myeloid Research Assay—Chef Ready (Ion Torrent™)

The Ion Torrent Oncomine Myeloid Research Assay consists of three pools of AmpliSeq oligonucleotide primers and associated reagents to generate amplicon libraries for next-generation sequencing (NGS) on Ion Torrent platforms. The assay is designed to provide sensitive and comprehensive sample amplification of relevant DNA mutations and fusion transcripts associated with myeloid disorders in a single NGS run. The panel is comprised of 40 key DNA genes and a broad fusion panel of 29 driver genes to cover the most relevant targets in major myeloid disorders: acute myeloid leukemia (AML), myeloid dysplastic syndrome (MDS), myeloproliferative neoplasms (MPN), chronic myeloid leukemia (CML), chronic myelomonocytic leukemia (CMML), and juvenile myelomonocytic leukemia (JMML).

This version of the assay is for automated Ion Torrent Chef library preparation. For manual library preparation, please see Cat. No. A32840.

Features include:
• Simple, robust workflow that encompasses mutations and fusions in two DNA and one RNA pool in a single NGS run
• Excellent coverage of challenging targets such as CEBPA and FLT3-ITDs
• Multiplex up to four samples on a single Ion 318 chip or twelve on an Ion 530 chip
• Compatible with as little as 10 ng/pool input DNA or RNA per library from blood or bone marrow samples
• Validated detection of somatic variants down to 5% allele frequency
• Simple and fast workflow produces targeted libraries in 3.5 hours typically
• For use on the Ion PGM and Ion S5 systems with manual or automated library preparation
• Compatible with the Oncomine Knowledgebase Reporter for variant annotation

The Oncomine Myeloid Research Assay is a comprehensive, targeted NGS assay designed to assist hematologists in the understanding of myeloid cancer. The assay is a complete kit facilitating the amplification of multiple gene targets from blood or bone marrow samples with as little as 10 ng of input DNA or RNA per pool. Leveraging the power of Ion AmpliSeq technology, this highly multiplexed NGS assay enables the generation of results from multiple samples in a single run. Designed for use on either the Ion PGM or Ion S5 sequencing systems, results are delivered in days rather than weeks. The assay is aligned with bioinformatics workflows within Torrent Suite and Ion Reporter analysis software that utilize optimized variant-calling parameters for SNV, InDel, and FLT3 large internal tandem duplication (ITD) detection. Variants can be annotated in the Oncomine Knowledgebase Reporter to generate a sample-specific report. Samples can be processed quickly and easily, and variants detected and identified confidently.

Ion GeneStudio™ S5 Food Protection System (Thermo Scientific™)

Identify species present in all food types using this next generation sequencing instrument as part of a NGS Workflow for Food Authenticity Workflow.

5500 SOLiD™ Fragment Library Barcode Adaptors 1-16 (Applied Biosystems™)

The 5500 SOLiD™ Fragment Library Barcode Adaptor Kit provides a complete set of 96 unique barcode adaptors and primers for cost-effective next generation sequencing of fragment libraries on the 5500 Series Genetic Analysis Systems. When used in combination with the 5500 SOLiD™ Fragment Library Core Kit, the 5500 SOLiD™ Fragment Library Barcoding Kit enables users to pool up to 96 fragment libraries prior to emulsion PCR and then conduct multiplexed sequencing analysis, simplifying the next generation sequencing workflow for a wide range of applications, including targeted enrichment

Key Product Features:
• Efficient multiplexing—enables multiplexing of up to 96 fragment or paired-end library samples on a single flow chip with the use of robust molecular barcodes.
• Cost effective runs—allows more samples per run, significantly decreasing the cost and handling requirements of ePCR, enrichment, and deposition.
• Consolidated 5500 SOLiD sampling—enables pooling of samples prior to emulsion PCR (ePCR) and sequencing on the 5500 Series Genetic Analysis Systems.
• Versatile sequencing—substantially benefits applications such as whole genome sequencing of small genomes or targeted resequencing of enriched samples.

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

Oncomine™ Focus Assay, AmpliSeq™ Library (Ion Torrent™)

The Oncomine Focus Assay is a targeted next-generation sequencing (NGS), multi-biomarker assay that enables the detection of variants across 52 cancer-relevant genes from DNA and RNA in a single workflow. The assay provides reagents for library construction and two pools—one DNA and one RNA—of multiplex PCR primers for preparation of amplicon libraries from formalin-fixed paraffin embedded (FFPE) tumor samples. Using as little as 10 ng of nucleic acid per primer pool, the assay enables analysis of hotpots, SNVs, indels, CNVs, and gene fusions in a single sequencing run.

The Oncomine Focus Assay, AmpliSeq Library, is for use as part of the Ion Chef and Ion GeneStudio S5 Systems workflow. Scalability and flexibility are achieved using Ion Xpress or IonCode barcode adapters for multiplexing barcoded samples on Ion S5 chips. For a kit that also includes reagents and consumables for automated library preparation on the Ion Chef System, please see the Oncomine Focus Assay, Chef-Ready Library.

From sample to answer
The Oncomine Focus Library Assay is part of an NGS workflow that helps researchers filter variant results from hundreds to just a few key cancer driver variants. Enabled by Oncomine informatics, this filtering, as well as the annotations from on-market labels, established guidelines (US-NCCN, US-FDA, EMSO, EMA), and global clinical trials, helps you contextualize and interpret findings to move toward the answers you need.

Learn more about Oncomine Focus Assay and Oncomine oncology.

Ion AmpliSeq™ Transcriptome Mouse Gene Expression Panel, Chef-Ready Kit (Ion Torrent™)

The Ion AmpliSeq Transcriptome Mouse Gene Expression Panel, Chef-Ready Kit allows simultaneous gene expression measurement of over 20,000 mouse RefSeq genes in a single assay. Providing the ability to work directly with low input levels of total RNA, the Ion AmpliSeq Transcriptome Mouse Gene Expression Assay is ideal for those interested in obtaining comprehensive and highly sensitive gene expression measurements from a wide range of RNA sources. This particular kit enables automated production of Ion AmpliSeq transcriptome libraries on the Ion Chef System. For manual production, see the Ion AmpliSeq Transcriptome Mouse Gene Expression Kit.

The Ion AmpliSeq Transcriptome Mouse Gene Expression Panel, Chef-Ready Kit offers:
• Flexible, straightforward library preparation—start with as little as 10 ng of total RNA from tissues, cells, or other sources
• Fast gene expression profiling with simple workflow—go from RNA to data in <2 days with ~45 minutes of total hands-on time with the automated workflow of the Ion GeneStudio S5 and Ion Chef systems
• A complementary software plug-in for automated sequencing analysis that provides gene quantitation and reporting as well as quality control metrics
• Compatibility with Ion Xpress Barcode adapters, allowing for multiplexed sequencing

Leveraging the speed and simplicity of Ion AmpliSeq technology, this ultrahigh-multiplex PCR enrichment approach enables rapid gene expression profiling with minimal hands-on time. This research method provides a faster, simpler, and lower-cost sequencing method that is highly correlated to whole-transcriptome RNA sequencing.

Straightforward library preparation and multiplex sequencing with Chef-Ready Kit
The Ion AmpliSeq Transcriptome Mouse Gene Expression Panel, Chef-Ready Kit, includes the reagents and materials required for automated preparation of 32 barcoded Ion AmpliSeq transcriptome libraries. The Ion Chef System can automate up to eight barcoded libraries per run, so the kit provides reagents and materials sufficient for four runs. Starting with as little as 10 ng of total RNA, the total RNA is first processed using the SuperScript VILO cDNA Synthesis Kit (not included), and the resulting cDNA amplified using Ion AmpliSeq technology to accurately maintain expression levels of all genes. Approximately 7 hours of instrument run time and only 15 minutes of hands-on time are needed to set up the Ion Chef System for library construction from cDNA.

The resulting libraries are ready for downstream template preparation using the Ion Chef System and sequencing on the Ion GeneStudio S5 or Ion Proton sequencing system. With the recommended eight libraries per Ion 540 or Ion PI Chip, libraries are multiplexed for flexibility, throughput increase, and cost reduction. Other multiplexing options are also possible, depending on the experimental design and desired level of sensitivity.