Table 2.
Biological information regarding up-regulated circRNAs in Hcy-treated and untreated ARPE-19 cells.
| CircRNA ID | Fold change | FDR | p Value | circRNA type | Chr | Best transcript | Gene symbol |
|---|---|---|---|---|---|---|---|
| hsa_circRNA_406494 | 2.11 | 1.00 | 0.33 | Exonic | chr4 | NM_133636 | HELQ |
| hsa_circRNA_405036 | 2.77 | 1.00 | 0.42 | Exonic | chr12 | NM_172240 | POC1B |
| hsa_circRNA_404798 | 2.08 | 1.00 | 0.57 | Exonic | chr10 | NM_015221 | DNMBP |
| hsa_circRNA_102620 | 2.04 | 0.75 | 0.00 | Exonic | chr2 | NM_145693 | LPIN1 |
| hsa_circRNA_101504 | 2.39 | 1.00 | 0.09 | Exonic | chr15 | NM_005313 | PDIA3 |
| hsa_circRNA_407344 | 2.07 | 1.00 | 0.33 | Exonic | chrX | NM_080612 | GAB3 |
| hsa_circRNA_060876 | 2.16 | 1.00 | 0.24 | Exonic | chr20 | NM_006045 | ATP9A |
| hsa_circRNA_092493 | 2.45 | 1.00 | 0.24 | Sense overlapping | chr2 | NM_003387 | WIPF1 |
| hsa_circRNA_103649 | 2.17 | 1.00 | 0.29 | Exonic | chr4 | NM_018475 | TMEM165 |
| hsa_circRNA_082335 | 2.10 | 1.00 | 0.11 | Exonic | chr7 | NM_014997 | KLHDC10 |
| hsa_circRNA_103348 | 2.07 | 1.00 | 0.04 | Exonic | chr3 | NM_012235 | SCAP |
| hsa_circRNA_101693 | 3.08 | 1.00 | 0.25 | Exonic | chr16 | NM_020677 | NMRAL1 |
| hsa_circRNA_063411 | 2.61 | 1.00 | 0.22 | Exonic | chr22 | NM_015088 | TNRC6B |
| hsa_circRNA_039626 | 2.07 | 1.00 | 0.06 | Exonic | chr16 | NM_016284 | CNOT1 |
| hsa_circRNA_033628 | 2.33 | 1.00 | 0.51 | Exonic | chr14 | NM_001311 | CRIP1 |
| hsa_circRNA_101744 | 2.24 | 1.00 | 0.31 | Exonic | chr16 | NM_020314 | C16orf62 |
| hsa_circRNA_404655 | 2.35 | 1.00 | 0.50 | Sense overlapping | chr1 | TCONS_00001278 | XLOC 000566 |
| hsa_circRNA_104940 | 2.07 | 1.00 | 0.41 | Exonic | chr9 | NM_005085 | NUP214 |
| hsa_circRNA_048764 | 2.33 | 1.00 | 0.57 | Exonic | chr19 | NM_015414 | RPL36 |
| hsa_circRNA_103461 | 2.98 | 1.00 | 0.13 | Exonic | chr3 | NM_007283 | MGLL |
| hsa_circRNA_101437 | 2.07 | 1.00 | 0.17 | Exonic | chr14 | NM_004434 | EML1 |
| hsa_circRNA_007237 | 2.44 | 1.00 | 0.22 | Sense overlapping | chr3 | NR_126560 | KCNMB2-AS1 |
| hsa_circRNA_404853 | 2.16 | 1.00 | 0.10 | Exonic | chr11 | NM_017508 | SOX6 |
| hsa_circRNA_050649 | 2.19 | 1.00 | 0.60 | Exonic | chr19 | ENST00000004982 | HSPB6 |
| hsa_circRNA_050648 | 2.04 | 1.00 | 0.53 | Exonic | chr19 | ENST00000004982 | HSPB6 |
| hsa_circRNA_101460 | 2.01 | 1.00 | 0.07 | Exonic | chr15 | NM_014608 | CYFIP1 |
| hsa_circRNA_100311 | 2.06 | 1.00 | 0.24 | Exonic | chr1 | NM_006699 | MAN1A2 |
| hsa_circRNA_100832 | 2.28 | 0.88 | 0.02 | Exonic | chr11 | NM_013402 | FADS1 |
| hsa_circRNA_402755 | 2.19 | 1.00 | 0.09 | Exonic | chr22 | NM_025225 | PNPLA3 |
| hsa_circRNA_000367 | 4.11 | 0.75 | 0.00 | Exonic | chr11 | NM_170601 | SIAE |
| hsa_circRNA_405330 | 5.70 | 0.91 | 0.02 | Exonic | chr15 | NM_005313 | PDIA3 |
| hsa_circRNA_402964 | 2.57 | 1.00 | 0.17 | Exonic | chr3 | NM_000532 | PCCB |
| hsa_circRNA_000735 | 2.12 | 1.00 | 0.48 | Exonic | chr17 | NM_002558 | P2RX1 |
| hsa_circRNA_403691 | 2.42 | 1.00 | 0.17 | Exonic | chr6 | NR_125845 | LOC101927768 |
| hsa_circRNA_102225 | 1.16 | 1.00 | 0.54 | Exonic | chr17 | NM_017921 | NPLOC4 |
| hsa_circRNA_082319 | 2.49 | 1.00 | 0.36 | Exonic | chr7 | NM_016478 | ZC3HC1 |
| hsa_circRNA_100834 | 2.07 | 1.00 | 0.17 | Exonic | chr11 | NM_004265 | FADS2 |
CircRNA types: Different classes of circRNAs as: “exonic”, “intronic”, and sense overlapping. P value: p value calculated from paired t-test. FDR: FDR is calculated from Benjamini Hochberg FDR. Fold Change: The absolute ratio (no log scale) of normalized intensities between two conditions. Chr: chromosome; Best transcript, is transcribed from the same gene position with circular RNA, the sequence information is most similar to circular RNA. Expression values for circRNAs that are known to be up-regulated more than three folds indicated in bold.