Table 1 of
Moolsuwan, Mol Vis 2022; 28:192-201. Table 1 of
Moolsuwan, Mol Vis 2022; 28:192-201.
Table 1. Summary of published data focused on gene expression profiling in retinoblastoma tissues.
| Microarray | RNA sequencing | |||||
|---|---|---|---|---|---|---|
| Chakraborty S. et al., 2007 [7] | Ganguly A. and Shields C., 2010 [8] | Kapatai G et al., 2013 [9] | Nalini V. et al., 2013[10] | Chai P. et al., 2018 Bioproject number PRJNA436090 [11] | Rajasekaran S. et al., 2019 Bioproject number PRJNA517916 [12] | |
| Platform | Human 19K cDNA microarray (University Health Network) (∼ 19,000 genes) | GeneChip Human U133 V2.0 microarray (Affymetrix) (38,500 genes) | Human Gene 1.0ST (Affymetrix) (28,869 genes) | Illumina TruSeq RNA Sample Prep Kit, HiSeq 2000 | Illumina TruSeq RNA Library Prep Kit, HiSeq 2500 | |
| Retinoblastoma tissues | ||||||
| Number of tissues | 3 | 6 | 21 | 3 | 3 | 7 |
| Age of patients (years) | N/A | 0.9 to 5 (0.9, 1, 1.1, 1.3, 2, 5) | N/A | 1 to 3 (1, 2.5, 3) | N/A | 0.8 to 6 (0.8, 1, 1, 3, 3, 6) |
| Treatment | N/A | enucleation | enucleation | 2 patients with chemotherapy and 1 without chemotherapy | N/A | 1 with chemotherapy, 6 without chemotherapy |
| Normal control tissues | ||||||
| Number of tissues | 10 (normal retina) | 6 (retina in opposite quadrant to RB) | N/A (adult retina and 96-day human fetal retina) | 2 (adult retina) | 3 (para-tumor) | 3 (frozen retina) |
| Age of donors/patients (years) | N/A | same patients | N/A | N/A | N/A | (5 to 22) 5, 12, 22 |
| Results | ||||||
| Number of significantly upregulated genes | 1,004 | 1,116 | 2,106 | 1,672 | N/A | 2,168 |
| Top ten genes with highest expression in RB tissue | DYNC1I2, TOR1AIP1, ZNF767, MBOAT5, RBM5, LRRC58, PCSK5, GNPTAB, ZNF551, SPATA21 | NUF2, PBK, TOP2A, E2F7, CASC5, MELK, EZH2, UHRF1, KIF11, PPP4R4 | SNORD41, HIST1H3I, DCT, SNORD29, SNORA23, SNORA71D, HIST1H3B, SNORA3, DTL, TOP2A | DCT, TOP2A, PTCH2, C18orf56, CLUL1, C8orf46, NT5E, DTL, ASPM, CENPF | N/A | DEPDC1, NDC80, NEIL3, KIF20A, GATA4, IGFBPL1, CKAP2L, AL451127.1, MNX1-AS1, AC112777.1 |