The Biorepository Portal Toolkit
Integrated Applications for Translational Research
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.
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.
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
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."
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
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.
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
.
at
The Children's Hospital of Philadelphia Research Institute
