The Ion Proton™ System was designed for high-throughput sequencing of exomes, transcriptomes, methylomes and genomes. It can produce up to 16Gb (anticipated to be 60GB with PII Chip late of 2014) of sequence data in a single day with 200 bp read lengths and a very low per base cost. The current average of 14Gb capacity with V3 chemistry is enough for two full human exomes, or two whole transcriptomes per run. It can do most important applications for less hypothesis-driven discovery studies including:

 

-Human Whole Genome Sequencing (WGS): expected to available mid-2014

-Human Whole Exomes Sequencing (WES): on-going, can do 10~12 exomes /week

-Whole human transcriptomes

-Whole human methylomes

-Chip-Seq samples

ION PROTON SYSTEM

          The Ion Torrent Personal Genome Machine (PGM)™ is a smaller scale sequencer. With available 314, 316, and 318 chips, it is well suited for sequencing small genomes and targeted DNA samples. The PGM has longer read lengths than the Ion Proton (400 vs. 200), is less expensive per run, and can support various less hypothesis-driven discovery studies and more hypothesis-driven validation studies:

 

-Whole Genome Sequencing for small genomes

-Targeted DNA sequencing

-Targeted RNA sequencing

 

ION PGM SYSTEM

          The Ion Chef™ System is the next generation of workflow simplification products for the Ion Proton™ and Ion PGM™ systems. The Ion Chef™ System provides automated, high-throughput template preparation and reproducible chip loading for users at any experience level. With typically less than 15 minutes of hands-on time, an intuitive touch-screen interface, and significantly higher productivity than the Ion OneTouch™ 2 System, the Ion Chef™ System makes the Ion Torrent™ sequencing workflow much more efficient and significantly reduces the labor cost.

 

 

ION CHEF SYSTEM

          The Ion OneTouch™ 2 System simplifies the workflows for the Ion Proton™ and Ion PGM™ systems by providing an automated solution for scalable and reproducible template preparation. The two systems allow multiple samples/applications to be prepared in a more timely manner to be sequenced using either Proton™ or PGM™ sequencer.

ONE TOUCH 2 SYSTEMS

          The Qubit Fluorometer™ gives an extremely accurate measurement of DNA, RNA or protein. Depending on the probes used, the Qubit will only measure the targeted molecule, and will not quantify non-targeted contaminating nucleic acids such as primers or RNA in a DNA prep.

QUBIT FLUOROMETER

          The Agilent 2100 Bioanalyzer™ system provides sizing, quantification and quality control of DNA and RNA samples. The 2100 Bioanalyzer is especially useful for assessing the integrity of submitted RNA samples, which is the key to success in RNA sequencing for whole transcriptome analysis and profiling for miRNA and lncRNA.

 

AGILENT 2100 BIOANALYZER

          Applied Biosystems ViiA7™ and Applied Biosystems 7900HT™ used real-time polymerase chain reaction. These products allow you to make high quality, relative and absolute quantitative analysis. It can provide accurate quantification of input genomic DNA and library for various NGS applications. It can also perform Real-Time PCR for SNP genotyping, targeted gene expression profiling, CNV validation etc.

REAL-TIME PCR SYSTEMS

          The PyroMark Q24™ is used for short DNA sequence variants qualitative and quantitative analysis, as well as epigenetic analysis, while allowing for analysis of up to 24 samples. With this equipment it is possible to make the CpG methylation analysis, SNP (single nucleotide polymorphism) detection and analysis, analysis of insertions/deletions, and copy number variations in the DNA sequence.

QIAGEN PYROMARK Q24 PYROSEQUENCING SYSTEM

Hardware

Software

A stand alone cluster server with 32 cores and 64GB of ram and 25TB hard-drive.

Three high performance workstations.

 

Ion Proton Server with Torrent Storage™ 40T storage device.

 

We have also established collaboration with Queen’s High Performance Computing Services, and will have access to their computing power for NGS data analysis.

 

          For those with little to no background in bioinformatics, we have commercial software packages such as Partek Genomic Suite (for Expression Profiling, Methylation, and Gene Pathway analysis on both microarray and NGS data) and HelixTree for individuals with very little or no bioinformatics background.

 

          For those with a sound background in bioinformatics, we are establishing pipelines for more sophisticated data analysis of NGS and Microarray data through collaborations with Bioinformaticians at McGill University, Duke University, UBC and Brock University.

 

BIOINFORMATICS SUPPORT

 

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