data_Heffer2020PlosOne

A sample qPCR data set with four experimental groups
(Uninjected, SNConly, DMSORPE, SNCRPE) and six target genes
normalized to one reference gene (Gapdh).
Each line belongs to a separate individual (non-repeated measure experiment).

internal

Tools for qPCR data analysis using Delta Ct and Delta Delta Ct methods, including t-tests, ANOVA, ANCOVA, repeated-measures models, and publication-ready visualizations. The package supports multiple target, and multiple reference genes, and uses a calculation framework adopted from Ganger et al. (2017) <doi:10.1186/s12859-017-1949-5> and Taylor et al. (2019) <doi:10.1016/j.tibtech.2018.12.002>, covering both the Livak and Pfaffl methods.

Ghader Mirzaghaderi

rtpcr

qPCR Data Analysis

data_Heffer2020PlosOne function

A data frame with 18 observations and 16 variables:<dl>
 <dt>Treatment</dt>
<dd>Experimental treatment group</dd> <dt>rep</dt>
<dd>Biological replicates</dd>
 <dt>Fn1, Ct.Fn1</dt>
<dd>Efficiency and Ct values of Fn1 gene</dd> <dt>Col1a1, Ct.Col1a1</dt>
<dd>Efficiency and Ct values of Col1a1 gene</dd> <dt>Acta2, Ct.Acta2</dt>
<dd>Efficiency and Ct values of Acta2 gene</dd> <dt>TgfB, Ct.TgfB</dt>
<dd>Efficiency and Ct values of TgfB gene</dd> <dt>Tnfa, Ct.Tnfa</dt>
<dd>Efficiency and Ct values of Tnfa gene</dd> <dt>Mcp1, Ct.Mcp1</dt>
<dd>Efficiency and Ct values of Mcp1 gene</dd> <dt>Gapdh, Ct.Gapdh</dt>
<dd>Efficiency and Ct values of Gapdh reference gene</dd>
</dl>

Format

Sample data in (multi-group design with 6 target genes) — data_Heffer2020PlosOne

A data frame with 18 observations and 16 variables:<dl>
 <dt>Treatment</dt>
<dd>Experimental treatment group</dd>

 <dt>rep</dt>
<dd>Biological replicates</dd>


 <dt>Fn1, Ct.Fn1</dt>
<dd>Efficiency and Ct values of Fn1 gene</dd>

 <dt>Col1a1, Ct.Col1a1</dt>
<dd>Efficiency and Ct values of Col1a1 gene</dd>

 <dt>Acta2, Ct.Acta2</dt>
<dd>Efficiency and Ct values of Acta2 gene</dd>

 <dt>TgfB, Ct.TgfB</dt>
<dd>Efficiency and Ct values of TgfB gene</dd>

 <dt>Tnfa, Ct.Tnfa</dt>
<dd>Efficiency and Ct values of Tnfa gene</dd>

 <dt>Mcp1, Ct.Mcp1</dt>
<dd>Efficiency and Ct values of Mcp1 gene</dd>

 <dt>Gapdh, Ct.Gapdh</dt>
<dd>Efficiency and Ct values of Gapdh reference gene</dd>


</dl>

data_Heffer2020PlosOne: Sample data in (multi-group design with 6 target genes)

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