Facility Details

Genome Sequencing Center
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SEQUENCING
o Illumina Certified Service Provider (1st in North America)
o Illumina GAIIx & HiSeq2000, SOLiD, PacBio RS
o Whole Genome/Transcriptome Shotgun, mRNA Seq,
ChIP-seq, small RNA
o Singleton and mate-paired reads

TARGET SELECTION
o Enrich subsets of genes and other selected regions using NimbleGen, Agilent or Raindance technologies

INFORMATICS
o Genome/Transcriptome Analysis
o Alpheus® cloud-based analysis system for Next–Gen sequencing data (http://alpheus.ncgr.org/)
o Nucleotide variant, in/dels, premature stop codons, splice isoforms, genomic rearrangements, and expression detection
o JMP-Genomics expertise and interface for downstream statistical analysis
o Custom Assembly/Annotation services

GENOTYPING
o Illumina-based genotyping assay for human, plants and animals

Sequencing infrastructure: Cluster stations for flow cell construction, and Agilent bioanalyzer, NanoDrop, PicoGreen devices for sequencing library quantification QA/QC. The wet lab has a full compliment of molecular laboratory equipment (e.g. ultra-low , -20 and 4 oC temperature freezers, centrifuges, agarose gel electrophoresis and gel documentation equipment) to support up to four workstations/researchers.

IT Infrastructure:
Data Storage (file servers)
- Four Sun X4500 - 24 TB (96TB total)
- One Sun X4540 48TB
- Isilon cluster 144TB
Image processing/Basecalling
- Two Sun X4150 and and one x4170 – Total: 6 x - 4-core processors, 24 GB RAM, 12 x 146GB Hard drives
Variant detection
- 10 Sun Blade 6000 chassis with 100 x 6220 Blades (600 Cores, 2TB of RAM and 58.4 TB disk)
DB storage
- Two sun 4150, two 4450 DB Servers, 6140 SAN with 70 TB for DB disk space, 4 Gb/s Switch fabric