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drLumi: an open-source package to manage data, calibrate, and conduct quality control of multiplex bead-based immunoassays data analysis

Sanz, Hector and Aponte, John J. and Harezlak, Jaroslaw and Dong, Yan and Ayestaran, Aintzane and Nhabomba, Augusto and Mpina, Maxmillian and Maurin, Obiang Régis and Díez-Padrisa, Núria and Aguilar, Ruth and Moncunill, Gemma and Selidji Todagbe, Agnandij and Daubenberger, Claudia and Dobaño, Carlota and Valim, Clarissa. (2017) drLumi: an open-source package to manage data, calibrate, and conduct quality control of multiplex bead-based immunoassays data analysis. PLoS ONE, 12 (11). e0187901.

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Abstract

Multiplex bead-based immunoassays are used to measure concentrations of several analytes simultaneously. These assays include control standard curves (SC) to reduce between-plate variability and normalize quantitation of analytes of biological samples. Suboptimal calibration might result in large random error and decreased number of samples with analyte concentrations within the limits of quantification. Suboptimal calibration may be a consequence of poor fitness of the functions used for the SC, the treatment of the background noise and the method used to estimate the limits of quantification. Currently assessment of fitness of curves is largely dependent on operator and that may add additional error. Moreover, there is no software to automate data managing and quality control. In this article we present a R package, drLumi, with functions for managing data, calibrating assays and performing quality control. To optimize the assay the package implements: i) three dose-response functions, ii) four approaches for treating background noise and iii) three methods for estimating limits of quantifications. Other implemented functions are focused on the quality control of the fitted standard curve: detection of outliers, estimation of the confidence or prediction interval, and estimation of summary statistics. With demonstration purpose, we apply the software to 30 cytokines, chemokines and growth factors measured in a multiplex bead-based immunoassay in a study aiming to measure correlates of risk or protection from malaria of the RTS,S malaria vaccine nested in the Phase 3 randomized controlled trial of this vaccine.
Faculties and Departments:09 Associated Institutions > Swiss Tropical and Public Health Institute (Swiss TPH)
09 Associated Institutions > Swiss Tropical and Public Health Institute (Swiss TPH) > Department of Medical Parasitology and Infection Biology > Clinical Immunology (Daubenberger)
UniBasel Contributors:Daubenberger, Claudia
Item Type:Article, refereed
Article Subtype:Research Article
Publisher:Public Library of Science
e-ISSN:1932-6203
Note:Publication type according to Uni Basel Research Database: Journal article
Language:English
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Last Modified:31 Aug 2018 06:38
Deposited On:08 Dec 2017 10:32

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