Table 2 Best combination of housekeeping genes for each group of samples, each model and respective control, and all groups yielded by software analyses.

From: Ppia is the most stable housekeeping gene for qRT-PCR normalization in kidneys of three Pkd1-deficient mouse models

Groups	Best pair of housekeeping genes identified by software analyses						Best pair of housekeeping genes	Best trio of housekeeping genes
Groups	NormFinder	GeNorm	RefFinder	ΔCt method	Bestkeeper	DataAssist	Best pair of housekeeping genes	Best trio of housekeeping genes
All	Actb + Pgam1*	Actb + Actg1	Hprt + Ppia	Hprt + Ppia	Actb + Hprt	Hprt + Ppia	Actb + Hprt/Hprt + Ppia	Actb + Hprt + Ppia
HT	Hprt + Pgam1	Hprt + Ppia	Actg1 + Pgam1	Actg1 + Pgam1	Hprt + Ppia	B2m + Hprt	Hprt + *Pgam1*	Actg1 + Hprt + *Pgam1/Hprt* + *Pgam1* + Ppia
WT	Pgam1 + Ppia	B2m + Pgam1	Actb + Pgam1	Actb + Pgam1	Actb + Hprt	Pgam1 + Ppia	Actb + *Pgam1*	Actb + *Pgam1* + Ppia
CY	Pgam1 + Ppia	Actg1 + Ppia	Actg1 + Ppia	Actg1 + Ppia	Actb + B2m	Pgam1 + Ppia	Actg1 + *Ppia*	Actb + Actg1 + *Ppia/Actg1* + Pgam1 + Ppia/Actg1 + B2m + *Ppia*
NC	Pgam1 + Ppia	Actb + Pgam1	Actb + Hprt	Actb + Hprt	Actb + Actg1	Pgam1 + Ppia	Actb + *Pgam1*	Actb + Hprt + *Pgam1/Actb* + Pgam1 + Ppia
SC	Actg1 + Ppia	Actg1 + Hprt	Actb + Ppia	Actb + Ppia	Actb + Gapdh	Actg1 + Ppia	Actb + *Ppia/Actg1* + *Ppia*	Actb + Hprt + *Ppia/Actg1* + Hprt + *Ppia*
CO	Actg1 + Pgam1	Actg1 + Ppia	Gapdh + Pgam1	Actg1 + Pgam1	Gapdh + Hprt	Actg1 + Pgam1	Actg1 + Pgam1	Actg1 + Gapdh + *Pgam1*
HT + WT	Hprt + Pgam1*	Hprt + Ppia	Actg1 + B2m	Actg1 + B2m	Actb + Hprt	B2m + Hprt	B2m + Hprt	Actg1 + B2m + Hprt
CY + NC	Pgam1 + Ppia*	Actg1 + Ppia	Actg1 + Ppia	Pgam1 + Ppia	Actb + Hprt	Pgam1 + Ppia	Pgam1 + Ppia	Actg1 + Pgam1 + Ppia
SC + CO	Actg1 + Ppia*	Actg1 + Hprt	Actb + Ppia	Actg1 + Ppia	Actb + Hprt	Actg1 + Ppia	Actg1 + Ppia	Actb + Actg1 + Ppia/Actg1 + Hprt + Ppia

*Best reference genes considering intra- and intergroup variations.
All, all samples; HT, haploinsufficient; WT, wild type; CY, cystic; NC, noncystic; SC, severely cystic phenotype; CO, control for the severely cystic phenotype. NormFinder (version 0.953; https://moma.dk/normfinder-software), GeNorm (version 2.2; https://genorm.cmgg.be/), BestKeeper (version 1.0; https://www.gene-quantification.de/bestkeeper.html), DataAssist (version 3.01; https://www.thermofisher.com/br/en/home/technical-resources/software-downloads/dataassist-software.html), the comparative ΔCt method and RefFinder (https://www.heartcure.com.au/reffinder/).
Genes in bold: higher frequency of appearance in softwares.

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Table 2 Best combination of housekeeping genes for each group of samples, each model and respective control, and all groups yielded by software analyses.

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