Table 3. Expression of mRNA and lncRNAs associated with selected genes identified in the proliferation and differentiation associated pathway, cell adhesion molecules and neurotrophin signalling pathway during ischemic injury.
| Gene | mRNA | Genomic orientation of lncRNA | Expression in ischemic injury | Pearson’s correlation coefficient (R) | mRNA-lncRNA relationship | |||||||
| lncRNA | 2 hr OGD | 4 hr OGD | Maturation | Ischemic injury | ||||||||
| Proliferation and differentiation related pathway | ||||||||||||
| Axin2 | NM_015732 | 0.03±0.03 | 1.54±0.33## | −0.83** | 0.88 | |||||||
| ENSMUST00000143435 | antisense overlap, intron-exon | −0.46±0.06 | −0.26±0.03# | 0.28 | −0.55* | Inverse | ||||||
| Igf1r | NM_010513 | 0.07±0.01 | 0.25±0.03## | 0.54* | 0.97 | |||||||
| AK040698 | antisense overlap, intron | 1.34±0.31 | 1.31±0.26 | −0.97* | 0.86** | Inconclusive | ||||||
| Ikbkb | NM_010546 | −0.49±0.09 | 0.10±0.01## | 0.87** | 0.16 | |||||||
| uc009ldv.1 | sense overlap, promoter | −2.05±2.06 | −1.22±0.38 | −0.04 | −0.59* | Inconclusive | ||||||
| Prkcb | NM_008855 | −0.89±0.13 | −0.23±0.03## | 0.95** | −0.25 | |||||||
| ENSMUST00000118119 | sense overlap, intron | −0.82±0.09 | −0.49±0.05## | 0.94* | −0.59* | Synergistic | ||||||
| Ralgds | NM_009058 | 0.12±0.02 | −0.25±0.05## | −0.64** | −0.65 | |||||||
| uc008iyq.1 | sense overlap, intron-exon | 1.23±0.15 | 0.41±0.06## | −0.73** | 0.32 | Inconclusive | ||||||
| Cell adhesion molecules | ||||||||||||
| Cntn1 | NM_001159648 | 0.34±0.06 | 0.39±0.06 | -0.78* | 0.91** | |||||||
| AK004399 | sense overlap, 3'UTR | −0.33±0.03 | −0.59±0.06## | 0.99* | −1.00* | Inverse | ||||||
| AK140484 | antisense overlap, intron | 0.09±0.01 | −0.33±0.04## | 0.47* | −0.75 | Inverse | ||||||
| Ncam1 | NM_010875 | −1.38±0.21 | −0.35±0.04## | 0.89* | −0.25 | |||||||
| uc009pjm.1 | sense overlap, promoter | −0.23±0.02 | 0.00±0.10## | −0.92* | −0.01 | Inconclusive | ||||||
| AK156022 | antisense overlap, intron | 1.34±0.13 | 0.69±0.07## | −0.41 | 0.52* | Inverse | ||||||
| Negr1 | NM_001039094 | −0.39±0.04 | −0.60±0.06# | 0.96** | −0.99* | |||||||
| uc008ruz.1 | Bidirectional | −0.98±0.13 | −0.70±0.08 | 0.50* | −0.70* | Synergistic | ||||||
| uc008rva.1 | Bidirectional | 0.98±0.24 | 1.15±0.24 | −0.53* | 0.93** | inverse | ||||||
| Nrxn1 | NM_020252 | −0.93±0.18 | −0.14±0.02## | 0.21** | −0.14 | |||||||
| uc008dwg.1 | sense overlap, intron | 0.08±0.02 | 0.35±0.06## | −0.48 | 0.95 | Inverse | ||||||
| Neurotrophin signalling pathway | ||||||||||||
| Ntrk2 | NM_008745 | −0.36±0.04 | −0.25±0.02# | 0.96** | −0.68* | |||||||
| AK021278 | antisense overlap, intron | 0.16±0.02 | −0.49±0.05## | −0.87** | −0.72 | Inconclusive | ||||||
| Sh2b3 | NM_008507 | −1.50±0.34 | −1.77±0.42 | 0.84** | −0.93** | |||||||
| AK007127 | antisense overlap, first intron | −0.06±0.02 | 0.37±0.07## | −0.53* | 0.79 | Inverse | ||||||
Reqseq number for the mRNA of each gene and the sequence number of the associated lncRNA are indicated. The average signal intensities were 618.09, 388.01 and 644.28 for the lncRNA and mRNA microarray carried out for 0 hr, 2 hr and 4 hr OGD respectively. Expression is shown in SLR ± SD relative to Day 2. Pearson’s correlation coefficient (R) was computed between SLR and days after maturation or hours of exposure to OGD ischemic injury. One sample t-test was used to calculate the p-value from 2 replicates for comparison of expression during maturation (Day 6 and Day 8) and OGD (2 hr and 4 hr OGD). Day 2 and 0 hr OGD were used as the µ values for maturation and OGD respectively (*p<0.10, **p<0.05). Student’s t-test was used to determine statistical difference between 2 hr and 4 hr OGD (# p<0.10, ## p<0.05). The inferred relationship between the mRNA-lncRNA expression from maturation and ischemic injury as well as genomic orientation of the associated lncRNA is also indicated.