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Center for Applied Genomics (CAG)

The Center for Applied Genomics (CAG) is a genome center devoted to research in biology and medicine, The focus is on using functional genomic approaches to further the prevention and prediction of the evolution of disease and response to therapy. Our aim is to discover the genetic causes of prevalent childhood diseases and translate findings into medical innovations.

Find Us

Next Generation Sequencing Services

The Center for Applied Genomics focuses on the genetic and genomic research with an emphasis on next-generation sequencing (NGS). Work at the Center for Applied Genomics ranges from basic research to diagnostics, drug discovery and applications to public health.

Requests

We provide high-quality Next-Generation (Next-Gen) sequencing data, quickly, and at a reasonable cost. Send us an email us to request an information packet: Kathleen.Houtchens@ucsf.edu

Index of Services 

Our facility offers state-of-the-art, Next-Gen services utilizing the 454 GS-FLX+ Titanium™, sequencing platform, which can be used in support of your research projects. We specialize in sequencing genes from pooled amplicons of immunogenetic complexes, including the human leukocyte antigen (HLA), and genes involved in cardiomyopathies. By utilizing amplicon-based Next-Gen technologies, we can provide fast and economical genomic research sequence support for immunogenomics, disease association, pharmacogenetics, population genetics and personalized medicine studies.

Our services include, but are not limited to:

  • HLA amplicon sequencing services - allelic typing to 6-8 digit resolution of class I and II genes (HLA-A, HLA-B, HLA-C, DRB1/3/4/5, DQB1, DQA1, DPB1, DPA1 in any combination of multiple or single genes)
  • KIR amplicon sequencing services – allelic typing of all KIR loci, including all exons and some upstream and intronic regions (available Spring 2013)
  • Genes involved in cardiomyopathies: NKX2-5, ISL1, MEF2C, GATA4, GATA5, GATA6, ZFPM2, FOXH1, FGF8, CRKL
  • Ultra-deep sequencing providing highly sensitive detection levels without any bias
  • Expertise Using Roche GS FLX+ for long reads
  • Custom amplicon sequencing services (call to discuss)
  • Quality data and reasonable rates and turnaround time

Our amplicon sequencing is based on ultra-deep sequencing of PCR products and can be used for analyzing genetic variations within a population. The long read lengths and data accuracy of Roche GS FLX+ makes the technology the gold standard for amplicon sequencing. As each molecule within a pool of amplicons can be sequenced individually, the technology has the power to detect rare variants with detection limits of at least 0.5 percent.

Our Certifications

  • Clinical Laboratory Improvement Amendment (CLIA)
  • College of American Pathologists (CAP)
  • State of CA Laboratory Field Services
  • American Society of Histocompatibility and Immunogenetics (ASHI)
  • American Board of Histocompatibility and Immunogenetics (ABHI)
  • America Board of Molecular Genetics (ABMG)