ImmPort: disseminating data to the public for the future of immunology
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The immunology database and analysis portal (ImmPort) system is the archival repository and dissemination vehicle for clinical and molecular datasets created by research consortia funded by the National Institute of Allergy and Infectious Diseases Division of Allergy, Immunology, and Transplantation. With nearly 100 datasets now publicly available and hundreds of downloads per month, ImmPort is an important source for raw data and protocols from clinical trials, mechanistic studies, and novel methods for cellular and molecular measurements. To facilitate data transfer, templates for data representation and standard operating procedures have also been created and are also publicly available. ImmPort facilitates transparency and reproducibility in immunology research, serves as an important resource for education, and enables newly generated hypotheses and data-driven science.
KeywordsFlow cytometry Open access Publicly available data Informatics Clinical trials
This work was supported in part by the National Institute of Allergy and Infectious Diseases (Bioinformatics Support Contract HHSN272201200028C). The authors thank Ashley Xia and Quan Chen at the National Institute of Allergy and Infectious Diseases for their oversight of the program. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
- 1.Qian Y, Wei C, Eun-Hyung Lee F, Campbell J, Halliley J, Lee JA, et al. Elucidation of seventeen human peripheral blood B-cell subsets and quantification of the tetanus response using a density-based method for the automated identification of cell populations in multidimensional flow cytometry data. Cytometry B Clin Cytom. 2010;78(Suppl 1):S69–82. doi: 10.1002/cyto.b.20554.PubMedCentralCrossRefPubMedGoogle Scholar
- 9.Klunker S, Saggar LR, Seyfert-Margolis V, Asare AL, Casale TB, Durham SR, et al. Combination treatment with omalizumab and rush immunotherapy for ragweed-induced allergic rhinitis: inhibition of IgE-facilitated allergen binding. J Allergy Clin Immunol. 2007;120(3):688–95. doi: 10.1016/j.jaci.2007.05.034.CrossRefPubMedGoogle Scholar
- 10.Newell EW, Sigel N, Bendall SC, Nolan GP, Davis MM. Cytometry by time-of-flight shows combinatorial cytokine expression and virus-specific cell niches within a continuum of CD8(+) T cell phenotypes (vol 36, pg 142, 2012). Immunity. 2013;38(1):198–9. doi: 10.1016/j.immuni.2012.12.002.CrossRefGoogle Scholar
- 13.Holdren JP. Increasing access to the results of federally funded scientific research. Executive Office of the President, Washington, DC. 2013. http://www.whitehouse.gov/sites/default/files/microsites/ostp/ostp_public_access_memo_2013.pdf. Accessed Feb 22, 2013.
- 14.Shen-Orr SS, Goldberger O, Garten Y, Rosenberg-Hasson Y, Lovelace PA, Hirschberg DL et al. Towards a cytokine-cell interaction knowledgebase of the adaptive immune system. Pac Symp Biocomput. 2009. http://www.ncbi.nlm.nih.gov/pubmed/?term=19209721.
- 18.Micheel C, Nass SJ, Omenn GS, Institute of Medicine (U.S.). Committee on the review of omics-based tests for predicting patient outcomes in clinical trials. Evolution of translational omics: lessons learned and the path forward. Washington, D.C.: National Academies Press; 2012.Google Scholar
- 19.Chen R, Sigdel TK, Li L, Kambham N, Dudley JT, Hsieh SC et al. Differentially expressed RNA from public microarray data identifies serum protein biomarkers for cross-organ transplant rejection and other conditions. PLoS Comput Biol. 2010;6(9). doi: 10.1371/journal.pcbi.1000940.