LabKey Server NAb: A Tool for Analyzing, Visualizing and Sharing Results from Neutralizing Antibody Assays

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LabKey Server NAb: A Tool for Analyzing, Visualizing and Sharing Results from Neutralizing Antibody Assays

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dc.contributor.author Piehler, Britt
dc.contributor.author Nelson, Elizabeth K.
dc.contributor.author Eckels, Josh
dc.contributor.author Ramsay, Sarah
dc.contributor.author Lum, Karl
dc.contributor.author Wood, Blake
dc.contributor.author Greene, Kelli M.
dc.contributor.author Gao, Hongmei
dc.contributor.author Montefiori, David C.
dc.contributor.author Igra, Mark
dc.contributor.author Seaman, Michael S.
dc.date.accessioned 2012-03-29T18:07:40Z
dc.date.issued 2011
dc.identifier.citation Piehler, Britt, Elizabeth K. Nelson, Josh Eckels, Sarah Ramsay, Karl Lum, Blake Wood, Kelli M. Greene, et al. 2011. LabKey Server NAb: A tool for analyzing, visualizing and sharing results from neutralizing antibody assays. BMC Immunology 12:33. en_US
dc.identifier.issn 1471-2172 en_US
dc.identifier.uri http://nrs.harvard.edu/urn-3:HUL.InstRepos:8462358
dc.description.abstract Background: Multiple types of assays allow sensitive detection of virus-specific neutralizing antibodies. For example, the extent of antibody neutralization of HIV-1, SIV and SHIV can be measured in the TZM-bl cell line through the degree of luciferase reporter gene expression after infection. In the past, neutralization curves and titers for this standard assay have been calculated using an Excel macro. Updating all instances of such a macro with new techniques can be unwieldy and introduce non-uniformity across multi-lab teams. Using Excel also poses challenges in centrally storing, sharing and associating raw data files and results. Results: We present LabKey Server's NAb tool for organizing, analyzing and securely sharing data, files and results for neutralizing antibody (NAb) assays, including the luciferase-based TZM-bl NAb assay. The customizable tool supports high-throughput experiments and includes a graphical plate template designer, allowing researchers to quickly adapt calculations to new plate layouts. The tool calculates the percent neutralization for each serum dilution based on luminescence measurements, fits a range of neutralization curves to titration results and uses these curves to estimate the neutralizing antibody titers for benchmark dilutions. Results: curve visualizations and raw data files are stored in a database and shared through a secure, web-based interface. NAb results can be integrated with other data sources based on sample identifiers. It is simple to make results public after publication by updating folder security settings. Conclusions: Standardized tools for analyzing, archiving and sharing assay results can improve the reproducibility, comparability and reliability of results obtained across many labs. LabKey Server and its NAb tool are freely available as open source software at http://www.labkey.com under the Apache 2.0 license. Many members of the HIV research community can also access the LabKey Server NAb tool without installing the software by using the Atlas Science Portal (https://atlas.scharp.org). Atlas is an installation of LabKey Server. en_US
dc.language.iso en_US en_US
dc.publisher BioMed Central en_US
dc.relation.isversionof doi:10.1186/1471-2172-12-33 en_US
dc.relation.hasversion http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3115917/pdf/ en_US
dash.license LAA
dc.subject infections en_US
dc.subject epitopes en_US
dc.subject vaccine en_US
dc.title LabKey Server NAb: A Tool for Analyzing, Visualizing and Sharing Results from Neutralizing Antibody Assays en_US
dc.type Journal Article en_US
dc.description.version Version of Record en_US
dc.relation.journal BMC Immunology en_US
dash.depositing.author Seaman, Michael S.
dc.date.available 2012-03-29T18:07:40Z
dash.affiliation.other HMS^Medicine- Beth Israel-Deaconess en_US

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