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. 2020 Jul 8;319(3):L456–L470. doi: 10.1152/ajplung.00487.2019

Table 1.

Validation of differential expression prediction in RNA-Seq data set by qRT-PCR

Gene Symbol Description Rat Lung HH/RARA
 Rat Lung RV/RARA
RNA-Seq
 qRT-PCR
 RNA-Seq
 qRT-PCR
Log2(Fold Change) FDR q-Value ΔΔCt(HH-RARA) FDR q-Value Log2(Fold Change) FDR q-Value ΔΔCt(HH-RARA) FDR q-Value
Per3 Period circadian regulator 3 1.585 5.21E-07 1.162 3.79E-03 1.935 2.59E-08 1.647 1.64E-02
Arntl Aryl hydrocarbon receptor nuclear translocator-like −1.096 1.31E-04 −1.985 3.79E-03 −2.452 5.79E-09 −2.534 2.09E-03
Rgs4 Regulator of G-protein signaling 4 −1.137 3.46E-03 −1.739 2.41E-02 −0.899 1.29E-06 −0.811 8.97E-03
Adora2 Adora 2 −0.483 2.71E-03 −0.419 2.52E-02 −0.685 8.55E-03 −0.463 7.79E-02
Lyve1 Lymphatic vessel endothelial hyaluronan receptor 1 −0.967 3.98E-11 −1.240 2.09E-03 ns ns ns ns
Ntrk2 Neurotrophic receptor tyrosine kinase 2 2.523 2.11E-27 2.397 1.40E-05 ns ns ns ns
Cyp1a1 Cytochrome P450, family 1, subfamily a, polypeptide 1 −2.088 2.56E-17 −2.337 5.04E-04 ns ns ns ns
Tnnt2 Troponin T2, cardiac type 1.229 2.13E-05 1.092 2.52E-02 0.280 ns 0.384 5.96E-02
Lgf2 Insulin-like growth factor 2 0.427 8.30E-03 0.432 ns −0.980 5.33E-04 −0.535 5.96E-02

A selection of predicted differentially expressed genes from the RNA-Seq data sets was validated by quantitative RT-PCR (qRT-PCR). Genes were chosen for their relevance to transcriptional changes caused by hypoxia or pulmonary hypertension. Values are expressed as log2[fold change ratios (hypoxia/room air; HH/RA-RA)]. qRT-PCR multiple comparison corrected q-values were computed by the Benjamini–Hochberg method. FDR, false discovery rate; HH, in utero and postnatal hypoxia (n = 7; 4 males, 3 females); ; ns, not significant; RA-RA, in utero and postnatal room air (n = 7; 3 males, 4 females); RV, right ventricle.