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Literature DB >> 23926226

nCal: an R package for non-linear calibration.

Youyi Fong¹, Krisztian Sebestyen, Xuesong Yu, Peter Gilbert, Steve Self.

Abstract

SUMMARY: Non-linear calibration is a widely used method for quantifying biomarkers wherein concentration-response curves estimated using samples of known concentrations are used to predict the biomarker concentrations in the samples of interest. The R package nCal fills an important gap in the open source, stand-alone software for performing non-linear calibration. For curve fitting, nCal provides a new implementation of a robust, Bayesian hierarchical five-parameter logistic model. nCal supports a simple graphical user interface that can be used by laboratory scientists, and contains functionality for importing data from the multiplex bead array assay instrumentation. AVAILABILITY: The R package 'nCal' is available from http://cran.r-project.org/web/packages/nCal/ under GPL-2 or later.

Mesh：

Year: 2013 PMID： 23926226 PMCID： PMC3789552 DOI： 10.1093/bioinformatics/btt456

Source DB: PubMed Journal: Bioinformatics ISSN： 1367-4803 Impact factor: 6.937

1 in total

1. A robust bayesian random effects model for nonlinear calibration problems.

Authors: Y Fong; J Wakefield; S De Rosa; N Frahm
Journal: Biometrics Date: 2012-05-02 Impact factor: 2.571

1 in total

11 in total

1. Longitudinal analysis of naturally acquired PfEMP1 CIDR domain variant antibodies identifies associations with malaria protection.

Authors: Nyamekye Obeng-Adjei; Daniel B Larremore; Louise Turner; Aissata Ongoiba; Shanping Li; Safiatou Doumbo; Takele B Yazew; Kassoum Kayentao; Louis H Miller; Boubacar Traore; Susan K Pierce; Caroline O Buckee; Thomas Lavstsen; Peter D Crompton; Tuan M Tran
Journal: JCI Insight Date: 2020-06-18

2. Transformation Model Choice in Nonlinear Regression Analysis of Fluorescence-based Serial Dilution Assays.

Authors: Youyi Fong; Xuesong Yu
Journal: Stat Biopharm Res Date: 2016-03-22 Impact factor: 1.452

3. Plasma cytokine levels and risk of HIV type 1 (HIV-1) transmission and acquisition: a nested case-control study among HIV-1-serodiscordant couples.

Authors: Erin M Kahle; Michael Bolton; James P Hughes; Deborah Donnell; Connie Celum; Jairam R Lingappa; Allan Ronald; Craig R Cohen; Guy de Bruyn; Youyi Fong; Elly Katabira; M Juliana McElrath; Jared M Baeten
Journal: J Infect Dis Date: 2014-11-10 Impact factor: 5.226

4. The inner foreskin of healthy males at risk of HIV infection harbors epithelial CD4+ CCR5+ cells and has features of an inflamed epidermal barrier.

Authors: Maria P Lemos; Javier R Lama; Shelly T Karuna; Youyi Fong; Silvia M Montano; Carmela Ganoza; Raphael Gottardo; Jorge Sanchez; M Juliana McElrath
Journal: PLoS One Date: 2014-09-30 Impact factor: 3.240

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

Authors: 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
Journal: PLoS One Date: 2017-11-14 Impact factor: 3.240

6. Rectal tissue and vaginal tissue from intravenous VRC01 recipients show protection against ex vivo HIV-1 challenge.

Authors: Rena D Astronomo; Maria P Lemos; Sandeep R Narpala; Julie Czartoski; Lamar Ballweber Fleming; Kelly E Seaton; Madhu Prabhakaran; Yunda Huang; Yiwen Lu; Katharine Westerberg; Lily Zhang; Mary K Gross; John Hural; Hong-Van Tieu; Lindsey R Baden; Scott Hammer; Ian Frank; Christina Ochsenbauer; Nicole Grunenberg; Julie E Ledgerwood; Kenneth Mayer; Georgia Tomaras; Adrian B McDermott; M Juliana McElrath
Journal: J Clin Invest Date: 2021-08-16 Impact factor: 19.456

nCal: an R package for non-linear calibration.

1. A robust bayesian random effects model for nonlinear calibration problems.

1. Longitudinal analysis of naturally acquired PfEMP1 CIDR domain variant antibodies identifies associations with malaria protection.

2. Transformation Model Choice in Nonlinear Regression Analysis of Fluorescence-based Serial Dilution Assays.

3. Plasma cytokine levels and risk of HIV type 1 (HIV-1) transmission and acquisition: a nested case-control study among HIV-1-serodiscordant couples.

4. The inner foreskin of healthy males at risk of HIV infection harbors epithelial CD4+ CCR5+ cells and has features of an inflamed epidermal barrier.

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

6. Rectal tissue and vaginal tissue from intravenous VRC01 recipients show protection against ex vivo HIV-1 challenge.

7. Fractalkine (CX3CL1), GM-CSF and VEGF-a levels are reduced by statins in adult patients.

8. Nonlinear Calibration Model Choice between the Four and Five-Parameter Logistic Models.

9. In men at risk of HIV infection, IgM, IgG1, IgG3, and IgA reach the human foreskin epidermis.

10. Adipose depot gene expression and intelectin-1 in the metabolic response to cancer and cachexia.