qPCRtools: An R package for qPCR data processing and visualization

Xiang Li; Xiang Li; Yingmin Wang; Yingmin Wang; Jingyu Li; Jingyu Li; Xinyue Mei; Xinyue Mei; Yixiang Liu; Yixiang Liu; Huichuan Huang; Huichuan Huang

doi:10.3389/fgene.2022.1002704

Frontiers in Genetics (Sep 2022)

qPCRtools: An R package for qPCR data processing and visualization

Xiang Li,
Xiang Li,
Yingmin Wang,
Yingmin Wang,
Jingyu Li,
Jingyu Li,
Xinyue Mei,
Xinyue Mei,
Yixiang Liu,
Yixiang Liu,
Huichuan Huang,
Huichuan Huang

Affiliations

Xiang Li: State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agri-cultural University, Kunming, China
Xiang Li: Key Laboratory for Agro-Biodiversity and Pest Control of Ministry of Education, Yunnan Agricultural University, Kunming, China
Yingmin Wang: State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agri-cultural University, Kunming, China
Yingmin Wang: Key Laboratory for Agro-Biodiversity and Pest Control of Ministry of Education, Yunnan Agricultural University, Kunming, China
Jingyu Li: State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agri-cultural University, Kunming, China
Jingyu Li: Key Laboratory for Agro-Biodiversity and Pest Control of Ministry of Education, Yunnan Agricultural University, Kunming, China
Xinyue Mei: State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agri-cultural University, Kunming, China
Xinyue Mei: Key Laboratory for Agro-Biodiversity and Pest Control of Ministry of Education, Yunnan Agricultural University, Kunming, China
Yixiang Liu: State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agri-cultural University, Kunming, China
Yixiang Liu: Key Laboratory for Agro-Biodiversity and Pest Control of Ministry of Education, Yunnan Agricultural University, Kunming, China
Huichuan Huang: State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agri-cultural University, Kunming, China
Huichuan Huang: Key Laboratory for Agro-Biodiversity and Pest Control of Ministry of Education, Yunnan Agricultural University, Kunming, China

DOI: https://doi.org/10.3389/fgene.2022.1002704
Journal volume & issue: Vol. 13

Abstract

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In biological research, qPCR is a technique that is frequently used to measure gene expression levels. The calculation of gene amplification efficiency is a critical step in the processing of qPCR data since it helps to decide which method to employ to compute gene expression levels. Here, we introduce the R package qPCRtools, which enables users to analyze the efficiency of gene amplification. Additionally, this software can determine gene expression levels using one of three approaches: the conventional curve-based method, the 2−ΔΔCt method, and the SATQPCR method. The qPCRtools package produces a table with the statistical data of each method as well as a figure with a box or bar plot illustrating the results. The R package qPCRtools is freely available at CRAN (https://CRAN.R-project.org/package=qPCRtools) or GitHub (https://github.com/lixiang117423/qPCRtools/tree/main/CRAN/qPCRtools).

Published in Frontiers in Genetics

ISSN: 1664-8021 (Online)
Publisher: Frontiers Media S.A.
Country of publisher: Switzerland
LCC subjects: Science: Biology (General): Genetics
Website: http://journal.frontiersin.org/journal/genetics

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