Currently available technologies for whole transcriptome profiling include Illumina microarray and RNA-sequencing. Additionally, focused profiling is available using a Fluidigm high-throughput real-time PCR platform.
The Core laboratory uses an Illumina HiScanSQ platform for gene expression profiling. The HiScanSQ is a dual function instrument, combining a microarray scanner with a sequencing module. The HiScan Reader, a high performance array scanner with sub-micron resolution, can image bead arrays, as well as sequencing flow cells. The platform also includes the SQ module, an add-on fluidics device that delivers Illumina’s sequencing-by-synthesis reagents, and the cBot clonal amplification system that grows the DNA clusters.
Focused profiling is performed using a Fluidigm BioMark HD. The Fluidigm Biomark HD leverages micro-fluidic technology to miniaturize qPCR reaction volumes down to a few nanoliters and allows over 9200 reactions to be run simultaneously with high precision. Additionally, there is a Fluidigm C1 Single Cell Preparation System, an on-chip capture and processing instrument, capable of capturing single cells and processing their RNA for analysis either by qPCR on the Biomark HD or for single cell RNA-seq on the HiScan SQ.
Ancillary equipment for sample processing includes a Qiagen QIAgility (a fluid handling robot), an Agilent Bioanalyzer (to measure RNA/DNA integrity and size) and a Tecan NanoQuant (for high throughput sample quantitation). Additionally, there is an Applied Biosystems StepOne Plus Real-Time qPCR instrument.
Services are available to BRI and VMMC investigators as well as outside investigators.
Vivian Gersuk, PhD
For more information, please contact Vivian Gersuk at (206) 287-1067.