Genome Sequencing Facility
The Genome Sequencing Facility (GSF) at Greehey Children’s Cancer Research Institute at UT Health San Antonio utilizes state-of-the-art genomic platforms to generate high-quality genomic data and provides support with its analysis.
About the Facility
The GSF provides Illumina next-generation sequencing (HiSeq, NextSeq and MiSeq platforms) and 10X Genomics single cell analysis for researchers both inside and outside the Institute, across the University, and at other academic institutions and companies. GSF offers two types of partnerships: research collaboration and fee-for-service. We strongly promote active collaboration on concrete and sustainable research activities that are of mutual benefit to GSF long-term success and our NGS user.
The Genome Sequencing Facility (GSF) was created in 2011 by Greehey Children’s Cancer Research Institute (Greehey CCRI) in UT Health San Antonio, upon the approval from the Medical School Dean’s office, with the acquisition of an Illumina HiSeq 2000 system. The GSF was originally a service facility supported entirely by the Greehey CCRI, with a focused mission for the genomics of pediatric cancer research. Since then, It has rapidly become a heavily utilized and well-functioning unit, used by many members of Greehey CCRI, the UT Health San Antonio Mays Cancer Center MD Anderson Cancer Center, (an NCI-designated Cancer Center, the only one in South Texas), UT Health San Antonio and some other researchers in surrounding San Antonio institutions, including the University of Texas at San Antonio, Texas Biomedical Research Institute, Brooke Army Medical Center and U.S. Army Institute of Surgical Research. In addition, enabled by providing the superior sequencing performance and fast project turn-around time, GSF has established a track record with wide user bases from outside researchers such as from Fox Chase Cancer Center, Johns Hopkins Medical Institute, Indiana University Medicine School, University of North Carolina, The Methodist Hospital Research Institute and others.
Due to increasing requests and demands of NGS applications to cancer research, the GSF was recruited as a new UT Health Cancer Center Shared Resource, as Next Generation Sequencing Shared Resources (NGSSR) in UT Health San Antonio 2014. Since 2015, the GSF has formally acquired Illumina MiSeq sequencer from The Research Core Laboratories managed by the Office of Vice President of Research. MiSeq is an ideal platform for relative small sequencing projects. The major applications with MiSeq are 16S metagenomics, targeted re-sequencing and targeted RNA expression.
In March 2016, Dr. Zhao Lai was awarded $600,000 NIH Shared Instrument grant (S10 grant 1S10OD021805-01) to purchase Illumina HiSeq 3000 to upgrade the sequencing platform. Illumina HiSeq 3000 has provided our NGS users the greater efficiency in terms of high-throughput, faster turn-around-time and cheaper cost. We are very grateful to NIH funding support to continue the GSF’s NGS journey to the new exciting direction.
In May 2016, Dr. Yidong Chen was awarded $3.7M CPRIT Core facility award (RP160732) to upgrade and expand NGS capacity, and further accelerate the adoption of high-throughput technology in translational cancer genetics and epigenetics research at UTHSCSA and the South Texas region. Illumina NextSeq 500 was acquired by funding support of CPRIT since February 2017. The NextSeq 500 provides the fast sequencing turnaround time for individual project.
We welcome opportunities to partner on many kinds of research projects regardless of size, both as scientific collaborations and on a fee-for-service basis. If you are considering next-generation sequencing for your research, please contact GSF director Dr. Zhao Lai for research collaboration or consultation on experimental design, pricing and scheduling.
The primary missions of the GSF are to:
- Provide Greehey Children’s Cancer Research Institute, Mays Cancer Center and UT Health San Antonio faculty access to high throughput next-generation sequencing technologies and bioinformatics support, with high-quality service & research and highly competitive pricing.
- Support the development of genome-enabled research projects, scientific programs and grant proposals.
- Education and training in NGS-focused genomics approached for future generation of scientists.
The facility should be listed in the “Acknowledgements” section of any publication using data generated in the Genome Sequencing Facility as follows:
Data was generated in the Genome Sequencing Facility which is supported by UT Health San Antonio, NIH-NCI P30 CA054174 (Cancer Center at UT Health San Antonio), NIH Shared Instrument grant 1S10OD021805-01 (S10 grant), and CPRIT Core Facility Award (RP160732).