10X Genomics Single Cell Technology

The GBSR is supporting single cell library construction using 10XC Genomics Chromium technology. For an overview, we invite you to visit the 10X Genomics website. Current list of assays available using the 10X Genomics Chromium platform include:

1. Single Cell Gene Expression
2. Single Cell Immune Profiling
3. Exome Sequencing

We provide full service to perform single cell isolation and library preparation using the 10X Genomics system.

Affymetrix™ GeneChip microarray system

Application areas that benefit from this approach include plant and animal genomics and transcriptomics, basic research, and industrial application of technologies for breeding, population diversity and conservation, trait analysis, and more. Unique solutions are also available for cancer research from discovery to clinical research and validation, such as cytogenetics research of constitutional and cancer disorders. Genetic studies of human complex traits, Mendelian disorders, and populations can be advanced with Affymetrix microarray analysis, such as through population-optimized and application-optimized genotyping to enable human genetic research workflows. Genomics Lab supports the GeneChip cartridge format which accommodates one labeled sample per array. Microarray Analyses include:

1. Copy Number
2. Cytogenetics
3. Human Genotyping, Pharmacogenomics, and Microbiome
4. Agrigenomics
5. miRNA Profiling
6. Transcriptome Profiling

For additional information and other product information, please visit the Affymetrix website.

Applied Biosystems Veriti Thermal Cycler

The Applied Biosystems Veriti Thermal Cycler delivers the proven reliability you expect from Applied Biosystems PCR instruments. The VeriFlex temperature control technology inside makes it possible to run up to 6 different temperatures in the same protocol step, providing precise control over your PCR optimization by gradient PCR.

Another important feature of the Veriti Thermal Cycler is to be able to control the heated lid temperature.

Illumina iScan System

The iScan System can scan hundreds of array samples per day, without sacrificing data quality or reproducibility. It supports our expansive portfolio of genetic analysis assays, from high-throughput genotyping to DNA methylation analysis.

For additional information visit the Infinium page.

Illumina iSeq 100 System

The iSeq 100 System is ideal for small whole-genome sequencing (eg, bacteria, viruses, plasmids), targeted sequencing of a set of genes or gene regions, gene expression analysis, and 16S metagenomics.

For additional information visit the iSeq 100 page

Illumina NextSeq 500 System

The NextSeq 500 System delivers the power of high-throughput sequencing, effectively transforming a broad range of high-throughput applications into affordable, everyday research tools. Its push-button operation delivers a one-day turnaround for a number of popular sequencing applications, including one whole human genome and up to 16 exomes, up to 20 non-invasive prenatal testing samples, up to 20 transcriptomes, up to 48 gene expression samples and up to 96 targeted panels.

With its streamlined informatics, sequencing data can be run through a range of open source or commercial pipelines or instantly transferred, analyzed, and stored securely in BaseSpace® or the new BaseSpace® OnSite for researchers needing an on premises solution.

NextSeq 500 also offers the flexibility to switch to lower throughput sequencing as needed, and while other platforms require several pieces of specialized equipment, the NextSeq 500 System integrates cluster generation and sequencing into a single instrument. Data is generated in as little as 12 hours for a 75 cycle sequencing run and less than 30 hours for paired 150 cycle reads.

The new system is supported by the full suite of Illumina sample preparation and target enrichment solutions, offering library compatibility across the entire Illumina sequencing portfolio. Its configurable output supports a wide range of applications and sample sizes with the accuracy of Illumina sequencing by synthesis (SBS) technology.

For additional information visit the NextSeq 500 page.

NanoString nCounter

The NanoString nCounter is a novel digital read-out technology designed for multiplexed measurement of nucleic acids with high levels of precision and sensitivity using fluorescent color-coded barcode probes. The probes hybridize to approximately 100 bases, and can be multiplexed to detect up to 800 different targets in a single reaction. Pre-built CodeSets are available, as well as custom CodeSets.

The technology uses molecular "barcodes" and single molecule imaging to detect and count hundreds of unique transcripts in a single reaction at high sensitivity (< 1 copy per cell). Starting with 50 - 100ng total RNA, no enzymatic processing steps are required for gene expression analysis.

Some of the main features of this platform are:

1. Able to analyze RNA samples of poor quality (such as FFPE samples)
2. Up to 800 transcripts can be interrogated in a single assay using 50ng-100ng total RNA
3. No cDNA conversion or amplification are required of target RNA
4. Very high dynamic range; sensitivity and reproducibility of the system exceed those of RT-qPCR
5. Able to detect RNA, miRNA, DNA and protein in a variety of different sample types, including: Tissue (fresh, frozen, FFPE-derived total RNA), Crude Cell & Tissue lysates, Whole Blood and other Biological Fluids, Total RNA and Genomic DNA

For additional information and other product information, please visit the NanoString nCounter website.

PyroMark Q24 PyroSequencing

The PyroMark Q24 uses Pyrosequencing technology for real-time, sequence-based detection and quantification of sequence variants and epigenetic DNA methylation. The PyroMark Q24 is highly suited for the analysis of CpG methylation, SNPs, insertion/deletions, STRs, gene copy number variations, as well as for microbial identification and resistance typing.

For additional information visit the PyroSequencing page.

QuantStudio 12K Flex Real-Time PCR System

The all-in-one qPCR instrument
Combining flexible throughput capabilities with a streamlined workflow, the Applied Biosystems™ QuantStudio™ 12K Flex system takes you from targeted discovery through confirmation and screening, all on a single platform.

Maximize throughput with minimal resources.
Increase your throughput by as much as 32-fold by running 4 Applied Biosystems™ OpenArray™ plates in a single run on the Applied Biosystems™ QuantStudio™ 12K Flex system. It's the equivalent of 32 traditional 384-well qPCR plates or 12,000 data points

Push your throughput even more.
When equipped with the OpenArray block, a single 9700 thermal cycler and the QuantStudio 12K Flex Applied Biosystems™ OpenArray™ AccuFill™ System, the QuantStudio 12K Flex system can produce up to 110,000 data points or more in an eight-hour day.

Reduce start up time and hands on time.
Start a 12,000 data point experiment typically in 20 minutes or less.

As you scale your experiments and move up in throughput, be assured that Applied Biosystems™ TaqMan™ Assay sensitivity, specificity, and wide dynamic range are optimized across all QuantStudio 12K Flex system block formats.

Four interchangeable blocks.
Choose and load the thermal-cycling block you need for the experiment at hand (OpenArray plate, TaqMan Array Card, 384-well, and Fast 96-well).

For additional information visit Taqman qPCR page.

Sample QC instruments

Genomics Laboratory provides a wide array of solutions for nucleic acid quantification and quality analysis on our Agilent 2100 Bioanalyzer system, Invitrogen Qubit, NanoDrop 2000, and Molecular Devices Spectramax Gemini XPS. These services are used to screen RNA, DNA, and proteins prior to any downstream applications for genomics. Researchers may order these services as a stand-alone assay, but some of our services automatically include these sample quality assays in the pricing. Product descriptions are found below.

The Agilent 2100 Bioanalyzer system

The Agilent 2100 Bioanalyzer system is an established automated electrophoresis solution for the sample quality control of biomolecules. The system integrates an instrument, data processing software, reagents, and a microfluidic chip specific for DNA, RNA, or protein analysis. It is suitable for next-generation sequencing (NGS), gene expression, biopharmaceutical, and genome editing workflows, delivering highly precise analytical evaluation of various sample types. Advantages of microfluidics-based automated electrophoresis over traditional gel electrophoresis include dramatically reduced sample (1 µL for nucleic acids, 4 µL for proteins) and reagent consumption, significantly faster analysis time, and less hands-on activities during sample preparation and data analysis. The Agilent 2100 Bioanalyzer system is ideal for the scientist requiring nucleic acids and protein electrophoresis analysis with moderately low throughput (10-12 samples) needs.

For additional information visit the Agilent page

The Invitrogen™ Qubit™ 3 Fluorometer

The Invitrogen™ Qubit™ 3 Fluorometer is a benchtop fluorometer that can be used for quantitation of double- or single-stranded DNA, RNA, microRNA, and protein using the highly sensitive fluorescence-based Qubit ® quantitation assays. Some features are:

1. Fast and highly accurate quantitation of DNA, RNA and protein in less than 5 seconds per sample
2. High levels of accuracy using only 1-20 ul of sample, even with very dilute samples
3. Use of dyes selective for dsDNA, ssDNA, RNA or protein minimizes the effects of contaminants in the samples
4. Large color touch screen for easy workflow navigation
5. Graphically displays up to 20 data points
6. Saves sample data as a .CSV file
7. Exports data to a USB drive or directly to your computer via a USB cable

For additional information and other product information please visit the Invitrogen website.

The Gemini™ XPS Microplate Reader

The Gemini™ XPS Microplate Reader with dual monochromators provides a flexible environment to determine the optimal excitation and emission settings for fluorescence intensity assays. Multiple-point well scanning optimizes cell-based assay sensitivity. Comparison of relative fluorescence units (RFUs) between samples is allowed by a unique calibration against an internal standard. Temperature-sensitive reactions are monitored with consistent temperature regulation from ambient to 45°C.

Thermo Scientific™ NanoDrop 2000

Thermo Scientific™ NanoDrop 2000 is a full-spectrum, UV-Vis spectrophotometer used to quantify and assess purity of DNA, RNA, Protein and more. The NanoDrop 2000 is the only microvolume spectrophotometer with patented sample retention technology that measures sample volumes as small as 0.5μL

Other equipment

Applied Biosystems™ 7900HT Fast Real-Time PCR System

The 7900HT Fast Real-Time PCR System is a real-time quantitative PCR system that combines 96- and 384-well plate compatibility and the TaqMan® Low Density Array with fully automated robotic loading-and also offers optional Fast real-time PCR capability.

1. Fast PCR option reduces run time to about 35 minutes in a standard 96-well format, or about 55 minutes in a 384-well plate
2. Continuous wavelength detection from 500-660 nm allows the use of multiple fluorophores in a single reaction
3. Measure gene expression levels, detect and quantitate pathogens, perform allelic discrimination (SNP genotyping) assays as well as score the presence of gene sequences
4. 96- or 384-well plate compatibility (including the TaqMan® Low Density Array)
5. Optional Enterprise edition software provides data analysis tools that support 21 CFR Part 11 guidelines providing data integrity and security
6. Hands-free plate-loading and unloading provides walkaway automation

Applied Biosystems™ GeneAmp™ PCR System 9700 Thermal Cyclers

The GeneAmp® PCR System 9700 amplifies nucleic acids using the polymerase chain reaction (PCR) process. The single or double Sample Block Modules attach to the top of the GeneAmp® PCR System 9700 Base Module and allows you to perform 96 to 768 reactions. Interchangeability of the 96 and 380 sample blocks lets you change sample well formats as well as throughput capacity.  

Thermo Scientific™ Savant™ DNA SpeedVac™ Concentrator

Thermo Scientific Savant SpeedVac vacuum concentrator uses a combination of centrifugation, vacuum and heat technologies for removing solvents and concentrating samples while maintaining sample integrity.