GeoMx Whole Transcriptome Atlas Grant: Tampa

Calling all University of South Florida Researchers! Apply now to quantitatively map the whole transcriptome to user-defined regions of tissue using the GeoMx Digital Spatial Profiler.

The cost of the project will be covered including entire experiment reagents from NanoString and initial sequencing reagents from Illumina. The USF Byrd Alzheimer’s Center will provide NanoString instrument service, and the USF Genomics Program Sequencing Core will provide Illumina instrument service. The trainings and consultations for the experimental design, sample prep and data analysis assistance/support will also be provided. The grant winner will be announced on February 28, 2023 at the Digital Spatial Genomics Symposium.

Full Transcriptome Spatial RNA Analysis

The GeoMx Human Whole Transcriptome Atlas (GeoMx Hs WTA) provides an unbiased view of 18,000+ protein-coding genes. The GeoMx Hs WTA unlocks new pathways to be explored by researchers and enables GeoMx RNA profiling in oncology, immunology, neuroscience, developmental biology, and other diverse fields. GeoMx Hs WTA provides robust and sensitive performance on FFPE or Fresh Frozen samples.

Using the GeoMx Mouse Whole Transcriptome Assay, one can apply spatial transcriptomics to reveal the tissue architecture and underlying function in genetically modified mouse models. Mouse models serve a critical role in understanding developmental biology, disease onset, progression, and treatment. Tissue heterogeneity, however, confounds the results from many mouse transcriptome studies based on bulk or single-cell RNA-seq data.

Project Design Examples:

  • 1 sample per slide with 48 collections per sample
  • 2 samples per slide with 24 collections per sample
  • 3 samples per slide with 16 collections per sample
  • 4 samples per slide with 12 collections per sample

Each Winner Will Receive:

  • 4 slides worth of the WTA probes with 192 total collections
    • $20K total experiment cost
    • $5K per slide
      • Includes reagents from NanoString and Illumina, sequencing costs and data analysis assistance/support
  • Project and data analysis consultation
  • Commercially available morphology kits:
    • Solid Tumor Kit: Pan-CK, CD45, and SYTO13 nuclear stain
    • Melanoma kit: S100B/Pmel17, CD45, and nuclear stain
    • Alzheimers kit: amyloid-beta, Iba-1, and nuclear stain
    • Parkinsons kit: alpha-synuclein, MAP-2, and nuclear stain
  • Reagents will be provided for entire experiment

Application Guidelines:

Terms and Conditions

This grant program is offered by NanoString for investigators at the University of South Florida but does not include a formal agreement or obligation between NanoString and the University of South Florida.

Publication of Project Results:

Upon project completion, the grant winner agrees to participate in at least one of the following activities relating to the specific project, with specific details of the applicable activity to be mutually agreed upon in good faith by NanoString and each winner: webinar, case study, blog post, or poster presentation. Each winner agrees that NanoString shall have the right to publicly announce the winner’s name and research topic and use anonymized data from the winner’s project in application notes including in marketing materials and seminars.

Eligibility and Requirements:

Applicants must be actively enrolled or employed at an institution or company in a capacity in which they perform life science research and have the ability to analyze samples within 30 days of award notification. The winner must be age 18 or older. Members of the immediate families of NanoString employees and directors, and/or persons living in the same household as such persons, are ineligible to participate in this grant program. The grant winners will meet with Nanostring to go through their projects in great detail. They will then work with the Field Application Scientist to get their samples stained with the GeoMx® Whole Transcriptome Atlas. Using the USF GeoMx instrument, the researcher will complete user-defined profiling and barcode collection. The sequencing will be completed at the USF Genomics Core. In addition to the costs that will be covered by NanoString, Illumina and USF Genomics Core will cover the cost of the downstream sequencing data generation for this grant.  

Miscellaneous:

By submitting a grant application, each applicant agrees that NanoString may use his or her name, abstract title, and abstract for marketing purposes. All grant applicants agree that NanoString may process the personal data they provide, including sharing such data with NanoString’s partners, collaborators and other third parties who are obligated to keep the data confidential, and in accordance with NanoString’s privacy policies available at nanostring.com/privacy. The grant award winner may be required to sign and return an affidavit of eligibility, release of liability, a publicity release, and other appropriate legal documentation reasonably requested by NanoString. No substitution or transfer of the awarded grant is allowed, except as otherwise permitted by NanoString. The award winner is responsible for any local tax liability (city, state, or federal) occurred by winning and accepting the award. If, for any reason, the grant program may not run as planned for any causes beyond the reasonable control of NanoString, then NanoString reserves the right in its sole discretion to cancel, terminate, modify or suspend the grant program. NanoString has not made any warranty, representation, or guarantee, explicit or implied, with respect to the grant award and related services, including, without limitation, their quality or fitness for a particular purpose. This program is void where prohibited or otherwise restricted by law. These terms and conditions and any action related to this grant program will be governed by the laws of the State of Washington without regard to or application of its conflict of law provisions or your state or country of residence. All claims, legal proceedings or litigation arising in connection with these terms and conditions and this grant program will be brought solely in the federal or state courts located in Seattle, Washington, and all applicants consent to the jurisdiction of and venue in such courts and waive any objection as to inconvenient forum. By participating in this grant program, each applicant unconditionally accepts and agrees to comply with and abide by these terms and conditions.