drLumi

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

Hector Sanz, John J. Aponte, Jaroslaw Harezlak, Yan Dong, Aintzane Ayestaran, Augusto Nhabomba, Maxmillian Mpina, Obiang Régis Maurin, Núria Díez-Padrisa, Ruth Aguilar, Gemma Moncunill, Agnandij Selidji Todagbe, Claudia Daubenberger, Carlota Dobaño, Clarissa Valim

Research output: Contribution to journalArticle

2 Citations (Scopus)

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.

Original languageEnglish (US)
Article numbere0187901
JournalPLoS One
Volume12
Issue number11
DOIs
StatePublished - Nov 1 2017

Fingerprint

immunoassays
Immunoassay
Quality Control
quality control
Quality control
data analysis
Assays
Calibration
Noise
assays
calibration
Software
Malaria Vaccines
chemokines
Chemokines
malaria
growth factors
Malaria
dose response
Random errors

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

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

In: PLoS One, Vol. 12, No. 11, e0187901, 01.11.2017.

Research output: Contribution to journalArticle

Sanz, H, Aponte, JJ, Harezlak, J, Dong, Y, Ayestaran, A, Nhabomba, A, Mpina, M, Maurin, OR, Díez-Padrisa, N, Aguilar, R, Moncunill, G, Todagbe, AS, Daubenberger, C, Dobaño, C & Valim, C 2017, 'drLumi: An open-source package to manage data, calibrate, and conduct quality control of multiplex bead-based immunoassays data analysis', PLoS One, vol. 12, no. 11, e0187901. https://doi.org/10.1371/journal.pone.0187901
Sanz, Hector ; Aponte, John J. ; Harezlak, Jaroslaw ; Dong, Yan ; Ayestaran, Aintzane ; Nhabomba, Augusto ; Mpina, Maxmillian ; Maurin, Obiang Régis ; Díez-Padrisa, Núria ; Aguilar, Ruth ; Moncunill, Gemma ; Todagbe, Agnandij Selidji ; Daubenberger, Claudia ; Dobaño, Carlota ; Valim, Clarissa. / drLumi : An open-source package to manage data, calibrate, and conduct quality control of multiplex bead-based immunoassays data analysis. In: PLoS One. 2017 ; Vol. 12, No. 11.
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