Developed by at The Children's Hospital of Philadelphia Research Institute

Designed with the modern biorepository in mind, the Biorepository Toolkit integrates key system components in a user-friendly interface to protect subject privacy, asynchronously collect data and deeply annotate  growing institutional specimen, data and genomic repositories by integrating familiar tools.

A "soup-to-nuts" integrated  and open solution for the modern translational science environment.

Children's Hospital of Philadelphia Collaborator

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Open Source & Available on GitHub

We believe in open source software and open-source our work. The Biorepository Toolkit and all integration work with non-proprietary systems is licensed under BSD 2-clause License.

Integrated with REDCap

The Biorepository Toolkit utilizes a custom client to REDCap allowing for flexible relation between REDCap projects, records and protected patient information while maintaining the flexibility of keeping form building cheap and easy.

Designed for Scientific Collaboration

Created by the Department of Biomedical and Health Informaticsat The Children's Hospital of Philadelphia Research Institute, the Biorepositoy Portal Toolkit fills a unique place in operating modern biorepositories and sharing precious scientific information to fuel discovery.

Nationally and Philanthropically Funded

The Children's Brain Tumor Foundation, The Clinical and Translational Science Award (CTSA), The CHOP Center for Childhood Cancer Research (CCCR), The PennCHOP Microbiome Center and othershave funded this integrated toolkit.

Announcements/Publications

Paper Published: Felmeister, A. S., Masino, A. J., Rivera, T. J., Resnick, A. C., and Jeffrey, W. (2016). The biorepository portal toolkit : An honest brokered , modular service oriented software tool set for biospecimen-driven translational research. BMC Genomics, 17(Suppl 4), 1–22. http://doi.org/10.1186/s12864-016-2797-9

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It takes a Village Alex Felmeister to present at the Leaders in Biobanking Congress 2016 in Baltimore on September 8, 2016.

More Info.

Felmeister, Alex S, Tyler J Rivera, Aaron J Masino, Adam C Resnick, and Jeffrey W Pennington. 2015. “Scalable Biobanking : A Modular Electronic Honest Broker and Biorepository for Integrated Clinical , Specimen and Genomic Research.” In IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 484–90. Bethesda, MD. doi:10.1109/BIBM.2015.7359732.
Data Science for Good Alex Felmeister presented at the Open Data Science Conference in Boston on May 21, 2016 - "How Modern web technologies, data visualization and open data integration tools can transform research in childhood cancer."

More Info

Felmeister, Alex S, Tyler J Rivera, Aaron J Masino, Adam C Resnick, and Jeffrey W Pennington. 2015. “Scalable Biobanking : A Modular Electronic Honest Broker and Biorepository for Integrated Clinical , Specimen and Genomic Research.” In IEEE International Conference on Bioinformatics and Biomedicine (BIBM), 484–90. Bethesda, MD. doi:10.1109/BIBM.2015.7359732.
The Biorepository Toolkit was fully demonstrated as a peer-guided workshop at the 2015 Joint Summits on Translational Science in San Francisco.
The PennCHOP Microbiome Center adopted usage of the toolkit for its comprehensive study management and specimen annotation workflows.

Major Collaborations

The Children's Brain Tumor Tissue Consortium (CBTTC).
  • Collaborating Institutions: CHOP, Seattle Children's Hospital, Lurie Children's Hospital, Meyer Children's Hospital, University of Pittsburgh and UCSF Benioff Children's Hospital
  • The Center for Childhood Cancer Research (CCCR) at CHOP.
    The Inflammatory Bowel Disease Research Group at CHOP.
    The PENNChop Microbiome Center

    Related Research Publications and News

    Vs. Cancer and CBTTC a Winning Team for Childhood Brain Tumor Research
    This summer, the Children’s Brain Tumor Tissue Consortium (CBTTC) established in 2011 by The Children’s Hospital of Philadelphia scored a home run when they received a grant from the Vs. Cancer Foundation. The 2-year-old nonprofit organization has inspired athletes and communities across the country to raise $1 million so far to fund childhood cancer efforts at 50 children’s hospitals. Source: CHOP Research Insitute Cornerstone Blog
    Grace S. Tan, Tom Curran. Identification of immunotargets in Hedgehog medulloblastoma for immunotherapy.[abstract]. In: Proceedings of the 106th Annual Meeting of the American Association for Cancer Research; 2015 Apr 18-22; Philadelphia, PA. Philadelphia (PA): AACR; Cancer Res 2015;75(15 Suppl):Abstract nr 5423. doi:10.1158/1538-7445.AM2015-5423

    Two studies reported in the Journal of Clinical Oncologyassessed the efficacy of a drug called vismodegib (Erivedge) in a subgroup of patients with recurrent medulloblastoma. Tom Curran, PhD, FRS, deputy scientific director of The Children’s Hospital of Philadelphia Research Institute, contributed to the article.

    Adam C. Resnick, PhD recently participated in the Champions of Change Campaign in Precision Medicine at the White House. They were invited by the nonprofit Dragon Master Foudation in recognition of their pediatric brain tumor research.

    Components:

      electronic Honest Broker (eHB)

      ehb-client
      ehb-service
    • eHB Datasources

      ehb-datasources
      REDCap Client

      A client to REDCap. Allowing study coordinators to associate multiple REDCap projects with a single honest-broker subject, and view or enter data de-identified into the forms on those projects.

      LIMS Client

      A custom client to our enterprise LIMS system. Please contact us to discuss the details of this project.

    • Query

      Harvest:For all researcher-facing projects we utilize the open-source Harvestdata exploration platform to display de-identified specimen, clinical and genomic data on a project-by-project basis.

      Screenshot from The Children's Brain Tumor Tissue Consortium. If you are part of the brain tumor research community and would like more information please check out the CBTTC Website . For access to this project, please goto CBTTC Data and Specimen Inventory Tooland apply for an account.

      If you are interested in joining the CBTTC or gettting more information about this project, please contact Jena Lilly .