Services

  • Bioinformatics

    The Genomic Diversity Facility, either independently or in collaboration with the Bioinformatics Facility, offers full service bioinformatics for standard or custom genotyping applications including reference genome assembly, SNP calling, data imputation, 3’RNA seq data analysis and genetic mapping. Please inquire (jcg233@cornell.edu).

  • Protocol Development

     Professional molecular biology lab services are available for evaluating proof-of-concept or collecting preliminary data for new genotyping protocols or other nucleic acid-based applications.  Please inquire (BRC_Genomic-Diversity@cornell.edu).

  • Nucleic Acid Sample Quantification and QC

    State-of-the-art services for quantifying nucleic acids (DNA and RNA) using fluorescent intercalating dyes, evaluation of fragment sizes by capillary or field inversion gel electrophoresis, sample cleanup using column-based purification protocols, sample concentration/dilution, and sample re-array.

  • Nucleic Acid Extraction

    DNA and RNA extraction services are available for both plants and animals.   Click here for more information.

  • DNA Sequencing

    • Next generation sequencing

      Services include whole genome sequencing, targeted region sequencing, genotyping-by-sequencing (GBS), whole transcriptome, targeted gene expression and small RNA profiling (RNA-Seq), sequencing of DNA fragments isolated by chromosome immunoprecipitation (ChIP-Seq), detection of DNA methylation (Meth-Seq), and many other applications. Next generation sequencing instruments include Illumina HiSeq2500, NextSeq500, and MiSeq platforms. Sequencing library construction services are available.  Click here for more information.

    • Sanger sequencing and fragment analysis

      • Full service DNA sequencing

        Services include Sanger cycle sequencing of submitted samples (DNA templates), dye terminator removal cleanup, and data generation on ABI 3730xl capillary electrophoresis instruments.  Sequencing of plasmids and PCR products can be done using either standard sequencing primers or user provided custom primers.  Templates can be submitted individually or in 96- or 384-well plates.  Customized sequencing chemistries can be used for difficult-to-sequence templates, such as templates with high-GC content or large constructs like BACs.  We routinely provide  high quality data results and fast data return times.  Click here for more information.

      • Ready-to-load DNA sequencing

        Core users can submit 96- or 384-well plates of samples that they cycle sequenced and did dye terminator cleanup, submitted in a ready-to-load format for data generation on ABI 3730xl sequencing instruments. Click here for more information.

      • Fragment analysis

        Services include microsatellite, AFLP and SNP genotyping of samples submitted in either 96- or 384-well plates for fluorescent DNA fragment analysis with up to five dye detection. Core users submit their samples in plates, ready-to-load on the ABI 3730xl instruments.  Core users supply the appropriate size standards for their samples.  The ABI 3730xl determines the size of the DNA fragments. Five fluorescent dyes allows multiplexing of up to 4 samples plus a size standard in every lane.  Click here for more information.

  • Library Construction for Next-Generation Sequencing

     Library construction services are available for sequencing small and large genomes (WGS), 3’RNA seq (a cost-effective alternative to RNA seq) and custom genotyping applications. Click here for more information.

  • Real-time PCR

    A Life Technologies/ABI Viia7 instrument system for real-time PCR (rtPCR) is available for direct use by core users. This system allows quantitation of starting material (genomic DNA, plasmid, RNA), along with heterozygote detection and SNP genotyping, using either fluorescent probes or the SYBR green reagent for detection.  Users reserve time on this instrument, prepare the plates of reactions, and set up the analysis runs on this instrument.  The core offers training on the use of the Viia7.  Users need to be trained before accessing this instrumentation.  Gene expression and SNP genotyping analysis can be performed on samples in 96- or 384-well plate format.  Click here for more information.

  • Digital PCR

    Several instruments are available for digital PCR. These systems allow absolute or relative quantification using intercalating dyes or hydrolysis probes (e.q. Taqman assays).  Click here for more information.

  • Sample preparation and QC

    Sample quality assessment/quality control (QA/QC) is available for all services, including DNA/RNA quantifications and checking RNA and DNA sample purity and integrity. The core provides recommendations for both DNA and RNA sample QA/QC.  Click here for more information. 

    Illumina sequencing library preparation services are available for next generation sequencing for both DNA and RNA samples. Click here for more information.

    10X Genomics library preparation services are available for both single-cell RNA-seq library construction and genomic DNA library construction for their linked-read technology. Click here for more information.

  • Microarrays

    Services include SNP genotyping, structural variation, gene expression and gene regulation analysis using the Illumina and Agilent microarray platforms.  Click here for more information.

  • Consultation

    Consultation on project design and data analysis is available upon request. Software analysis tools are available through the core.  Coordinated project design consultation and data analysis support are available with the BRC bioinformatics, bio-IT,  proteomics, imaging, and advanced technology assessment cores.  Click here for more information.

     

  • Workshops and training

    The Genomic Diversity Facility offers training for user-accessible instruments (GenoGrinder and lyophilizers), sample preparation and data analysis pipelines/software.  Data analysis workshops are also presented in collaboration with the Bioinformatics Facility and/or other Cornell affiliates. Click here for more information.