Genomics, Epigenomics and Sequencing Core (GESC)

Xiang Zhang, PhD, Core Manager

The Genomics, Epigenomics and Sequencing Core (GESC), originally named as Sequencing and Microarray Laboratory, was established in 1999. GESC is a fee-for-service, one-stop facility that provides genomics and epigenomics related service and collaboration to researchers at the University of Cincinnati, Cincinnati Children's Hospital and other institutions.
In 2012, GESC was transformed into the next generation sequencing-based core facility. Since then, it has been expanding its services and seamlessly integrated with the bioinformatics team for handling massive amounts of data generated by these services. Equipped with Illumina sequencer and automated liquid handling system, GESC provides a wide variety of high-quality NGS services and continuously developing new methodologies to meet researchers’ requirements. In addition, it offers Illumina BeadChip assay and a series of other supportive services. The Core manager Xiang Zhang routinely provides consultation to researchers from sample preparation to experiment design.
GESC is a small but highly efficient team. Nearly 100% of its expenses is paid from its service revenue. The Core’s financial status is extraordinary healthy and stable.

Services9
  • 1. Illumina next generation sequencing

    RNA-seq; miRNA-seq
    DNA-seq; ChIP-seq; exome-seq; amplicon-seq
    WGS; whole mitochondrial genome sequencing (new)
    Targeted methyl-seq; WGBS; RRBS
    Ultra-low input RNA-seq, miRNA-seq, ChIP-seq; ultra-low input RRBS (new)

    Cost:

    contact core manager

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  • 2. Illumina Infinium beadchip assay

    DNA methylation study: MethylationEPIC
    Beadchip-based 5-hmC assay (new)
    Genotyping and CNV assay

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  • 3. DNA/RNA extraction and QC analysis

    Cell; Tissue; Blood; FFPE sample, etc
    DNA/RNA QC
    Agilent Bioanalyzer assay
    DNA quantification by fluorescent-based Qubit assay

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  • 4. NGS-based multiplexed bisulfite PCR sequencing (new)

    Methylation analysis of multiple targeted regions in a single assay at single CpG resolution

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  • 5. Bisulfite PCR sequencing

    Promoter CpG island analysis and primer design for bisulfite PCR
    Cloning and sequencing
    Data analysis

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  • 6. Real-time qPCR

    Real-time RT-PCR for RNA-seq data validation
    Taq-Man CNV/SNP assay

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  • 8. Other service/collaboration

    (Please inquire)

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  • 7. Grant and manuscript preparation

    Collaboration
    Consultation
    Materials and Methods writing
    Supporting letter

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  • Collaboration and/or authorship maybe required if the Core has significant intellectual contribution.

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Equipment1
  • GES Core major equipment

    HiSeq sequencing for the next generation sequencing (Illumina, San Diego, CA)
    SMARTer Apollo automatic liquid handling system (Takara Bio USA, Mountain View, CA)
    iScan system for Infinium beadchip Assay (Illumina, San Diego, CA)
    FastPrep-24 5G homogenizer (MP Bio Solon, OH)
    Bioanalyzer for DNA/RNA QC analysis (Agilent, Santa Clara, CA)
    CentriVap micro IR Vacuum Concentrator (Labconco, Kansas City, MO)
    Qubit 3.0 fluorometer (Thermo Fisher, Waltham, MA)
    Covaris S2 Focused-ultrasonicators for precise DNA/chromatin shearing (Covaris, Woburn, MA)
    ABI QuantStudio 5 Real-Time PCR System (Thermo Fisher, Waltham, MA)
    Veriti thermal cycles (Thermo Fisher, Waltham, MA)
    Enduro GDS Touch Gel Documentation System agarose (Labnet Edison, NJ)
    Desktop and floor centrifuges
    Incubators, heaters and shakers
    Revco high-performance ultra-low freezers, freezers and refrigerators (Thermo Fisher, Waltham, MA)
    Smart- Uninterruptible Power Supplies (Schneider Rueil-Malmaison, France)
    Branson 5800 Series Ultrasonic Cleaner (Danbury, CT)
    Servers, high performance computers, massive data storage devices

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