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Ultra Turrax™ Tube Drive from IKA™ for PGM™ System Ion Torrent™

The ULTRA-TURRAX® Tube Drive from IKA® for the Personal Genome Machine™System is a sample preparation instrument for use in the Personal Genome Machine™ sequencing workflow. This customized benchtop device is used for the preparation of appropriately sized reactors for emulsion PCR. This device can be used in conjunction with Template Preparation Tubes.

The ULTRA-TURRAX® Tube Drive from IKA® for the PGM™ System provides you with:
• Lower cost per sample
• Scalability

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

3130xl/3100 Genetic Analyzer 16-Capillary Array, 50cm Applied Biosystems™

This is a 50 cm 16-capillary array (internally uncoated) for the 3130xl and 3100 Genetic Analyzer. Use for fragment analysis and sequencing applications. Capillary dimensions are 61 cm x 50 µm i.d. Usage per array is 100 runs (with use of Applied Biosystems reagents).

AmpFLSTR™ Yfiler™ Direct Kit Applied Biosystems™

The AmpFLSTR Yfiler Direct Kit enables forensic laboratories to perform high-quality Y-STR analysis of single-source reference samples using direct PCR amplification. This kit amplifies the same 17 Y-STR loci as the AmpFLSTR Yfiler Kit and is designed to generate accurate results with faster thermocycling conditions than the Yfiler Kit. Blood or buccal samples on treated paper (FTA Card or NUCLEIC-CARD System) can be punched into PCR plates or tubes and taken directly to PCR amplification, without reduction in data quality. Samples collected with the Buccal DNA Collector and other untreated substrates can be processed without additional workflow steps using the Applied Biosystems Prep-n-Go Buffer.

Key Features:

• Supports direct PCR amplification (no DNA extraction or quantification required) of single source reference samples on treated and untreated paper
• Provides maximum concordance with the Yfiler kit
• Designed to deliver faster cycling times through the introduction of a new fast-capable enzyme (~2.5 hours)

In addition, the Yfiler Direct kit uses the same dye set, allelic ladder, and primer sequences as the standard Yfiler kit, which:

• Facilitates comparison with casework data
• Streamlines validation and implementation

Complete Validated Solution
We offer a complete solution to meet the needs of the human identification community. Our system includes DNA extraction and quantification kits, a range of AmpFLSTR STR Kits, instrumentation, software, and consumables.

The AmpFLSTR Yfiler Direct Kit is part of a comprehensively validated system for STR-based human identification. The PCR reaction components, primer sequences, and amplification protocols have been developed, optimized, and validated together with Applied Biosystems instrumentation and software to provide specific, robust amplification.

The Yfiler Direct kit is subjected to rigorous quality control testing to ensure consistent performance. We develop and manufacture our products in accordance with ISO 9001 quality system requirements. Additionally, a Certificate of Analysis is available upon request that confirms that the specific combination of components within each lot meets quality assurance testing specifications.

Experience Matters
We are the only company in the world that designs and validates its reagents, instruments, and data analysis software together as an integrated system for DNA testing. Technical Service Scientists and Field Application Specialists are available to answer your technical questions, review data, and make recommendations on how to perform assays and troubleshoot results. All of these resources help ensure success when using Applied Biosystems human identification solutions in your laboratory.

IMPORTANT NOTICE:
The purchase of this product conveys to the buyer the non-transferable license to use the purchased amount of the product only for forensic or paternity testing conducted by the buyer. This license does not include, as ruled by a U.S. Court, a license to use this product in chimerism determination or analysis, molar specimens classification, cell line authentication, determination of fetal sex, cancer analysis, genetic research, non-casework-related forensic applications (such as general research in forensics or teaching and training persons not employed in a forensic laboratory), identifying or determining maternal cell contamination, or sample tracking. Further rights can be obtained by contacting Promega Corp., 2800 Woods Hollow Rd., Madison, WI 53711 USA.

For licensing and limited use restrictions visit thermofisher.com/HIDlicensing.

Collibri™ PS DNA Library Prep Kit for Illumina Systems, with UD indexes (Set B, 25-48) Invitrogen™

The Invitrogen Collibri PS DNA Library Prep Kit prepares libraries for whole genome sequencing (WGS) on high-throughput Illumina next-generation sequencing (NGS) systems. The kit is suitable for physically sheared (PS) genomes of all sizes and variable quality, including FFPE samples.

The Collibri PS DNA Library Prep Kit:
• Includes in-process visual feedback at every step of the process to confirm proper mixing of reagents for the highest chance of library prep success
• Includes all necessary components in a single kit
• Offers consistent, even coverage of variable GC regions from inputs ranging from 1 to 1,000 ng
• Offers improved coverage of challenging genomic regions compared to already available library prep technologies
• Provides up to 96 combinatorial dual or unique dual indexes
• Is applicable for automation of library preparation

The Collibri PS DNA Library Prep Kit contains inert dyes that provide visual feedback during library preparation: the reaction mixes change color in response to the addition of critical components at each step. The inert dyes do not interfere with enzymatic reactions and do not compromise sequencing results.

The Collibri PS DNA Library Prep Kit consistently offers higher confidence SNP and INDEL calls resulting from stronger coverage of challenging genomic regions from a wide range of inputs (1 ng to 1 µg) of physically sheared double-stranded DNA (see figure below). Additionally, a PCR-free version is offered for inputs starting at 500 ng DNA. The entire library preparation protocol takes about 3.5 hours with a PCR workflow. The kit contains adapters with unique dual indexes (UDIs) or combinatorial dual indexes (CDs) that allow pooling of up to 24 or 96 different samples before the sequencing run.

Applications
The Collibri PS DNA Library Prep Kit is recommended for:
• Whole genome sequencing
• Resequencing
• de novo assembly

Ridom™ SeqSphere+ Software for Ion Torrent™ Systems (Commercial) Ion Torrent™

SeqSphere+ Software from Ridom allows for automatic processing and analyzing of microbial sequence data obtained from Ion Torrent™ systems. SeqSphere+ Software enables whole genome microbial typing (MLST+) or traditional MLST sequencing projects. This software is designed both for individual labs and for distributed work-groups (client/server model) to enable easy data sharing. License options are available for 1, 3, or 5 years; 2 or 5 seats; and commercial or academic/government labs.

Ridom SeqSphere+ Software Features:

User-friendly: no scripting skills or bioinformatician needed

Highly automated workflow: download a pre-designed task template or create a custom template, then apply it to the analysis of hundreds of strains with almost no user intervention.

Single, expanding nomenclature service: worldwide, unique nomenclature service that enables a 'Molecular Typing Esperanto'

DNA re-sequencing editor: edit and analyze reference-mapped assemblies of Ion Torrent™ data (e.g., MLST, MLST+) with auto-correction of homopolymer-related insertion/deletion errors.

Sanger data: assemble, edit, and analyze Sanger CE sequencing data (e.g., MLST).

Analytical tools: select data entries from a comparison table for epidemiologic, evolutionary, or functional analysis. Cluster and visualize data entries by using minimum spanning or UPGMA/neighbor-joining trees.

Database:
   --Store, search, retrieve, export, and create reports from your epidemiologic and DNA sequence data stored in an integrated database. Search new sequence entries against stored data.
   --Data fields are compliant with the metadata requirements of the NCBI BioSample. Enables data entry plausibility checks.

Bacterial typing: typing of bacteria is automatically performed with user-defined quality parameters (e.g., coverage, stop codons) using public or self-defined query libraries and task templates.

Ridom Community:
   --Rapidly and easily share task templates with other institutions or download them online from the Task Template 'Store'.
   --Option to contribute to a single, worldwide, expanding, publicly-available database of nomenclature and epidemiologic data. Larger (supra) national institutions may obtain their own server for epidemiologic data upon request.

Security:
   --Encryption (SSL) of data in transmission
   --Various configurable user roles, user groups, and access controls
   --Audit trail functionality (who, when and what)

Computer Specifications (Minimum)

Client computer OS: Windows® 7 64-bit, CPU: Core i5, RAM: 8 GB, HD: 500 GB, Internet connection required to use public Ridom MLST+ Nomenclature Server & Task Template 'Store' (supports working with a private and local nomenclature and to generate custom tasks).

Server computer OS: Windows® 7/Linux 64-bit (Ubuntu LTS recommended), CPU: Core i5, RAM: 8 GB (48 GB recommended if MIRA de novo assembly done on this server), HD: 2 TB (RAID level 1 or 5 recommended), it is recommended not to use the NGS machine computer as server.

User Bulletin: 310 Genetic Analyzer Applied Biosystems™

This is a bulletin describing the use of the G5v2 Module for Use with Dye Set 33 (DS-33) and 5-dye applications.

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

3130xl/3100 Genetic Analyzer 16-Capillary Array, 36 cm Applied Biosystems™

This is a 36 cm 16-capillary array (internally uncoated) for the 3130xl and 3100 Genetic Analyzer. Use for fragment analysis and rapid sequencing applications. Capillary dimensions are 47 cm x 50 µm i.d. Usage per array is 100 runs (with use of Applied Biosystems reagents).

BigDye XTerminator™ Purification Kit Applied Biosystems™

The BigDye XTerminator® Purification Kit is a fast, simple purification method for DNA sequencing reactions that removes unincorporated BigDye® terminators and salts. No more dye blobs! Cleanup is complete in under 40 minutes and requires less than 10 minutes of labor.

• Eliminate liquid transfer – Use a single plate.
• Obtain complete dye blob removal.
• Stabilize the samples before analysis.
• Improve your sequencing workflow.
• Perform manual or automated protocols.
• Get rapid, reliable, and reproducible results.

Simple Purification Process
Traditional purification methods, such as ethanol precipitation, require the addition of multiple reagents along with decanting and centrifuging steps. The BigDye XTerminator® Purification Kit requires the addition of only two reagents which can be added sequentially or premixed:

• XTerminator™ Solution – Scavenges unincorporated dye terminators and free salts from the post-sequencing reaction.
• SAM™ Solution – Enhances the performance of the XTerminator™ Solution and stabilizes the post-purification reactions.

The protocol is very simple (see figure 1):
1. Perform cycle sequencing with BigDye® terminators.
2. After cycle sequencing, centrifuge the reaction plate briefly, and then pipette the correct volume of SAM™ Solution into each plate well.
3. Pipette the correct volume of XTerminator™ Solution into each well:
4. Vortex the XTerminator™ Solution bulk container briefly.
5. Using a wide-bore pipette tip (recommended wide-bore tips), pipette the correct volume of liquid into each plate well
6. Seal the plate using a heat seal or Clear Adhesive Film (P⁄N 4306311). Vortex for 30 minutes (recommended 96-well microplate vortexers and 384-well microplage vortexers), then centrifuge the reaction plate briefly.
7. Place the reaction plate in the Applied Biosystems DNA analyzer. Select run module and run plate.

Excellent Long Fragment Recovery
You won’t sacrifice sequence length when you use the BigDye XTerminator® Purification Kit. Figure 2 shows data from the DNA Technology Unit, Plant Biotechnology Institute (NRC-PBI) Saskatoon, Canada. The Q20 base read=1044 bp.

Improved Short Fragment Recovery
Use the BigDye XTerminator® Purification Kit to obtain higher quality data. Figure 3 shows a comparison between the BigDye XTerminator® Purification Kit and ethanol precipitation-based purification performed at the DNA Technology Unit, Plant Biotechnology Institute (NRC-PBI) Saskatoon, Canada. The BigDye XTerminator® Purification Kit results in superior short fragment recovery. Ethanol purification produces sequence data marred by dye blobs.

Increased Stability
Sealed reaction plates are stable for 48 hours at room temperature or 10 days at 4°C You can re-run the same sample in case of a power interruption, computer malfunction, etc. without having to repeat the experiment. This increases your flexibility when loading a reaction plate on a CE instrument.

Run Modules Available
Applied Biosystems provides download-able run modules for use with the BigDye XTerminator® Purification Kit and Data Collection Software. These modules are designed for the 3100, 3100–Avant (with Data Collection v2.0 or above), 3130⁄3130xl, and 3730⁄3730xl Analyzers. The software modules for the BigDye XTerminator® Purification Kit are compatible with the Windows® 2000 and Windows® XP operating systems and are available on our software download page:

http:⁄⁄www.appliedbiosystems.com⁄absite⁄us⁄en⁄home⁄support⁄software⁄dna-sequencing⁄bigdye-xterm-purif-kit.html

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

Ion Plus Fragment Library Kit for AB Library Builder™ System Ion Torrent™

The Ion Plus Fragment Library Kit for AB Library Builder™ System provides a rapid, flexible, and high-throughput solution for library construction upstream of semiconductor sequencing when starting with fragmented DNA. 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 library construction of 13 DNA libraries for semiconductor sequencing. Use of this reagent cartridge requires additional standard or barcoded library adapters (sold separately).

This library kit offers:

Simplicity and convenience of automated library preparation upstream of semiconductor sequencing
Rapid and flexible workflow automating library creation and size selection in as little as 2 hours starting with pre-fragmented DNA
Lower input requirement providing the ability to make amplification-free libraries from as little as 50 ng starting material
Scalable methodology applicable to automated library preparation systems including the AB Library Builder™ System

With greatly reduced hands-on time, the Ion Plus Fragment Library Kit for AB Library Builder™ System automates preparation of up to 13 standard, paired-end, or barcode fragment libraries in about 2 hours per run, starting with small amplicons or pre-sheared gDNA samples. Size selection of the libraries is performed automatically without the expense or effort of gel-based methods. Alternatively, libraries can be manually size-selected by 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 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. This modular reagent system allows for the construction of a variety of fragment libraries (i.e., standard and barcoded) depending on the library adapters used (library adapters sold separately).

Ion Torrent Sequencing Made Simpler, Faster, and More Affordable
The Ion Plus Fragment Library Kit for AB Library Builder™ System automates library creation and size selection, eliminating the need for costly time-consuming gel-based size selection, and requires as little as 50 ng of sample, accelerating your path to semiconductor sequencing. 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 510™ & Ion 520™ & Ion 530™ Food Protection Kit – Chef (1 sequencing run per initialization) Thermo Scientific™

Perform robust and automated template preparation and sequencing using the Ion 510™ & Ion 520™ & Ion 530™ Food Protection Kit – Chef (1 sequencing run per initialization)  as a part of Thermo Scientific™ Next Generation Sequencing (NGS) Food Authenticity Workflow.

The Thermo Scientific NGS Food Authenticity Workflow allows identification of the meat, plant and fish species present in even the most challenging sample types; protecting your business from food fraud by verifying the authenticity of samples for improved traceability and food safety.

Collibri™ PS DNA Library Prep Kit for Illumina Systems, with UD indexes (Set C, 49-72) Invitrogen™

The Invitrogen Collibri PS DNA Library Prep Kit prepares libraries for whole genome sequencing (WGS) on high-throughput Illumina next-generation sequencing (NGS) systems. The kit is suitable for physically sheared (PS) genomes of all sizes and variable quality, including FFPE samples.

The Collibri PS DNA Library Prep Kit:
• Includes in-process visual feedback at every step of the process to confirm proper mixing of reagents for the highest chance of library prep success
• Includes all necessary components in a single kit
• Offers consistent, even coverage of variable GC regions from inputs ranging from 1 to 1,000 ng
• Offers improved coverage of challenging genomic regions compared to already available library prep technologies
• Provides up to 96 combinatorial dual or unique dual indexes
• Is applicable for automation of library preparation

The Collibri PS DNA Library Prep Kit contains inert dyes that provide visual feedback during library preparation: the reaction mixes change color in response to the addition of critical components at each step. The inert dyes do not interfere with enzymatic reactions and do not compromise sequencing results.

The Collibri PS DNA Library Prep Kit consistently offers higher confidence SNP and INDEL calls resulting from stronger coverage of challenging genomic regions from a wide range of inputs (1 ng to 1 µg) of physically sheared double-stranded DNA (see figure below). Additionally, a PCR-free version is offered for inputs starting at 500 ng DNA. The entire library preparation protocol takes about 3.5 hours with a PCR workflow. The kit contains adapters with unique dual indexes (UDIs) or combinatorial dual indexes (CDs) that allow pooling of up to 24 or 96 different samples before the sequencing run.

Applications
The Collibri PS DNA Library Prep Kit is recommended for:
• Whole genome sequencing
• Resequencing
• de novo assembly

Ion AmpliSeq™ Transcriptome Mouse Gene Expression Kit Ion Torrent™

The Ion AmpliSeq Transcriptome Mouse Gene Expression Assay 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 manual library preparation with throughput flexibility. For automated production, see the Ion AmpliSeq Transcriptome Mouse Gene Expression Panel, Chef-Ready Kit.

The Ion AmpliSeq Transcriptome Mouse Gene Expression Assay 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 manual kit
Starting with as little as 10 ng of total RNA, libraries can be prepared in approximately seven hours with only one hour of hands-on time. Total RNA is first processed with the SuperScript VILO cDNA Synthesis Kit (not included), and the resulting cDNA is amplified using Ion AmpliSeq technology to accurately maintain expression levels of all genes.

The resulting libraries are ready for downstream template preparation using the Ion OneTouch 2 or Ion Chef System and sequencing on the Ion GeneStudio S5 or Ion Proton System. Libraries can be barcoded for multiplexing, providing flexibility, reduced cost, and increased throughput, with the recommended 16 libraries per Ion 550 Chip and 8 libraries per Ion 540 or Ion PI chip. Other multiplexing options are also possible, depending on the experimental design and desired level of sensitivity.

3130 Genetic Analyzer (factory refurbished) Applied Biosystems™

With the Applied Biosystems 3130 Genetic Analyzer, you get the sophisticated automation and superior performance of the 3130 system, at acquisition and operating costs tailored to a growing research lab. This instrument is refurbished by the original manufacturer to meet both manufacturing and product specifications. This system includes the refurbished instrument, new Windows computer, Data Collection software, choice of one analysis software package, installation by an Applied Biosystems “5-Step Certified" Field Service Engineer, chemistry kit, training, new parts and a one year warranty. Availability may be limited.

• Run a wide variety of sequencing and fragment analysis applications including microsatellite analysis, AFLP, LOH, SNP validation, and SNP screening.
• Reduce maintenance time by eliminating manual syringe washing and filling with automated polymer delivery.
• Increase your data quality for sequencing and fragment analysis applications – longer read length, and higher resolution with shorter run times.
• Increase laboratory productivity and turnaround time by processing 96- or 384-well plates with a four-capillary array.

Perform a Wide Range of Applications
The Applied Biosystems 3130 Genetic Analyzer is more than just a DNA sequencer. You can run a wide variety of sequencing and fragment analysis applications including microsatellite analysis, AFLP, LOH, SNP validation, and SNP screening – as well as de novo sequencing and resequencing (mutational profiling). The full range of applications can be run on a single polymer and capillary array meaning you can run mixed applications on one plate. The software even includes tools to assist with regulatory and compliance requirements (In the United States, this assists with FDA 21CFR part 11).

Easy to Use
Reduce maintenance time by eliminating manual syringe washing and filling with the new automated polymer delivery system. No more handling of polymer syringes for set up and maintenance. Samples are automatically injected into the four-capillary arrays, and – unlike slab-gel systems – only minimal amounts of DNA are required for accurate analysis. Seamlessly switch between sequencing and fragment analysis runs, even in the same plate with the expanded one-polymer, one-array functionality for both sequencing and fragment analysis applications.

Superior Data Quality
Simply set up your sample and then sit back and watch as the analyzer's ultra-rapid sequencing gives you high-quality data (with Length of Read longer than 500 bp) in less than 35 minutes. Achieve accurate read lengths of 1,000 base pairs (bp) or longer in a single sequencing reaction using the 80 cm capillary array and the 3130 POP-7™ polymer.

Ideal for Growing Labs
The flexible, four-capillary 3130 system gives you all the advanced automation and superior performance of Applied Biosystems 3130xl platform, at acquisition and operating costs tailored to a growing research lab. And as your throughput needs increase, you can easily upgrade the system to 16 capillaries. It is the perfect way to get the capacity and savings you need today – without limiting your growth options. Researchers who own an ABI PRISM® 3100-Avant or 3100 Genetic Analyzer can upgrade to the new Applied Biosystems 3130 or 3130xl Genetic Analyzer.

3130 and 3130xl instruments are CE marked and compliant with the specifications and requirements as set in the EMC directive 89⁄336⁄EEC and the Low Voltage directive 73⁄23⁄EEC.

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

Reservoir Septa Applied Biosystems™

This is a Reservoir Septa for ABI PRISM™ 3100 Genetic Analyzer and ABI PRISM™ 3100-Avant™ Genetic Analyzer.

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

ONC ION AMPLISEQ FOR CHEF, 4x DL8 Ion Torrent™

This is a replicate of the existing AmpliSeq SKU A89024 for revenue under the CS4 PL to be bundled with Oncomine tumor specfic panels.
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