Emory GRA Genome Center
The Emory GRA Genome Center (EGC) was set up in spring 2009 to offer the Emory Research Community the opportunity to use exciting "next generation" sequencing technologies. Funding for equipment purchases came from the Georgia Research Alliance (GRA) and the Atlanta Clinical & Translational Science Institute (ACTSI). The Director of the EGC is Dr. Timothy Read. The EGC has an advisory board consisting of Prof. David Stephens, Prof. Stephen Warren, Dr. Michael Zwick and Ms. Patricia Haugaard. EGC accounting follows OMB CIRCULAR A-21 "Cost Principles for Education Institutions"(http://www.whitehouse.gov/omb/rewrite/circulars/a021/a021.html).
The EGC currently runs two state-of-the art sequencing instruments. The Illumina GAII (in April 2009) typically produces 60-80M reads of 18-36 nt in a single flow cell of 8 lanes (one lane is reserved for controls). Reads can be multiplexed using 12 separate tags. Longer, paired-end reads runs reading 36 nt from both sides of a DNA fragment are also possible, as are long-insert libraries of up to 6kb. Input DNA for the GAII is generally 1ug or greater. Typical applications for the GAII include whole genome resequencing (human, plants, bacteria), RNA-seq, Digital Gene Expression, MicroRNA and Chip-Seq.
The Roche/454 GS-FLX Titanium instrument is capable of sequencing 300-600 Mb, with reads lengths of 300-450 nt. Reads can be multiplexed using 12 separate ‘MID' tags. Mate pair libraries spanning insert sizes of up to 6 kb can be constructed. A GS-FLX picotiter plate is divided into 2,4,8, or 16 regions. Applications range from de novo bacteria and viral genome sequencing, deep-sequencing of PCR amplicons, metagenomics, ancient DNA sequencing and expression tag sequencing.
Other major equipment includes a Covaris E210 Acoustic Focusing Instrument and Roche LightCycler 480 II.
Guidelines
- EGC expects all relevant human/animal use protocols to have been completed by user before sample submission
- Researchers are to provide at least 5 u g purified DNA per library.
- Please submit samples in TE ph 8.0 not dH20.
- ECG will verify quantity and quality of input DNA prior to runs. We will advise customers if DNA quantity/ quality is likely to result in below standard performance.
- Library quantitation determined by real-time PCR or spectroscopy.
- On-machine titration of libraries is charged as a separate instrument run
- Basic Illumina and 454 analysis and remapping will be provided by EGC
- ECG cannot store customer data long term. ECG will offer opportunity for customers to transfer the data to their own external hard drives.
- Costs for Courier shipment of hard drives/CDs, samples etc will be paid by customer.
- All DNA samples, libraries and data are the property of the customers.
- Any concerns or disputes should be referred to the EGC Advisory Board
- If the data is eventually used in a publication, we kindly ask that you mention the Emory Genomics Center and sources of funding for equipment, the Georgia Research Alliance and Atlanta Clinical & Translational Sciences Institute, in the acknowledgements section.
Acknowledgement & Authorhship
The Core Facilities at Emory are here to support your research. In order to ensure that the appropriate recognition is attributed to the facilities, please acknowledge the facilities on all publications.