Table 1 Overview of circRNAs identifed by RNA sequencing and microarrays in BCa
From: Expression profiles, biological functions and clinical significance of circRNAs in bladder cancer
Sample | Special treatment | Detection Method | GEO database | Data source | total circRNA | Number of circRNA differently expressed (fold change ≥2) | circRNAs validated by qRT-PCR | Ref./PMID |
|---|---|---|---|---|---|---|---|---|
4 paird BCa and BCN tissues | RNAse R | CircRNA microarray | GSE92675 | CircRNA microarray | 3243 | 469 (285 upregulated, 184 downregulated) | 6 | 27484176 |
3 paird BCa and BCN tissues | rRNA-depleted and RNase R | RNA-seq | GSE97239 | RNA-seq | 16,353 (6154) | 571 (47 upregulated, 524 downregulated) | circ_HIPK3 | 28794202 |
1 paird BCa and BCN tissues | rRNA-depleted | RNA-seq | GSE77661 | RNA-seq | 67,358(27296) | / | circ_HIPK3 | 27050392 |
4 paird BC and BCN tissues | / | RNA-seq | / | RNA-seq | / | 59(7 upregulated, 52 downregulated) | hsa circ 0018069 | 30984788 |
2 paird BCa and BCN tissues | RNAse R | RNA-seq | / | RNA-seq | 6834 | 567 | 40 | 30745833 |
5 paird BCa and BCN tissues | rRNA and linear RNA-depleted | RNA-seq | / | RNA-seq | 88,732(62,788) | 56 (14 upregulated, 42 downregulated) | 2 | 29151929 |
4 paird BCa and BCN tissues | rRNA-depleted | RNA-seq | / | RNA-seq | / | 118 (34 upregulated, 84 downregulated) | 3 | 30025927 |
9 different grades of BCa and BCN tissues | / | RNA-seq | / | RNA-seq | / | 244 (H vs L), 316 (H vs N), 42 circRNAs overlapped | 7 | 31545480 |
BCa 5637, T24 and SV-HUC-1 cell lines | / | CircRNA microarray | / | CircRNA microarray | / | / | circ_CASC15 | 31072448 |
10 paird BCa and HC urine samples | Rnase R | CircRNA microarray | / | CircRNA microarray | / | 86 (53 upregulated, 33 downregulated) | circ_0137439 | 31777254 |
3 pairs of BCSCs and BCNSCs samples | / | CircRNA microarray | / | CircRNA microarray | 4451 | 127 (113 upregulated, 14 downregulated) | circ_103809 | 32065779 |
3 paird BCa and BCN tissues | / | CircRNA microarray | / | CircRNA microarray | / | 734 (478 upregulated, 256 downregulated) | 8 | 30983072 |
3 paird BCa and BCN tissues | Rnase R | CircRNA microarray | GSE112719 | CircRNA microarray | / | 80 (37 upregulated, 43 downregulated) | circ_101320 | 30305293 |
3 paird BCa and BCN tissues | / | CircRNA microarray | / | CircRNA microarray | 1038 | / | 7 | 29558461 |
457 NMIBC samples | / | RNA-Seq | / | Bioinformatics analysis | 15,223 | / | 13 | 29263845 |
4 paird BCa and BCN tissues | / | CircRNA microarray | GSE92675 | Bioinformatics analysis | / | 469 (285 upregulated, 184 downregulated) | circ_MYLK | 28687357 |
3 paird BCa and BCN tissues | / | / | GSE97239, GSE92675 | Bioinformatics analysis | / | 18 (5 upregulated, 13 downregulated) | 3 | 31169020 |
4 paird BCa and BCN tissues | / | CircRNA microarray | GSE92675 | Bioinformatics analysis | / | 200 | hsa_circ_0000144 | 30098434 |
4 paird BCa and BCN tissues | / | CircRNA microarray | GSE92675 | Bioinformatics analysis | / | 408 | circ_0058063 | 30362519 |
4 paird BCa and BCN tissues | / | CircRNA microarray | GSE92675 | Bioinformatics analysis | / | 89 (66 upregulated, 23 downregulated) | circ_0001429 | 30909190 |
4 paird BCa and BCN tissues | / | CircRNA microarray | GSE92675 | Bioinformatics analysis | / | 433 (264 upregulated, 169 downregulated) | circ_CEP128 | 30134837 |
4 paird BCa and BCN tissues | / | CircRNA microarray | GSE92675 | Bioinformatics analysis | 3423 | 433 (264 upregulated, 169 downregulated) | circ_CEP128 | 30939216 |
4 paird BCa and BCN tissues | / | CircRNA microarray | GSE92675 | Bioinformatics analysis | / | 312 (195 upregulated, 117 downregulated) | circ_0058063 | 32181485 |
4 paird BCa and BCN tissues | / | CircRNA microarray | GSE92675 | Bioinformatics analysis | / | / | circ_VANGL1 | 30146736 |
4 paird BCa and BCN tissues | / | CircRNA microarray | GSE92675 | Bioinformatics analysis | 3243 | 469 (285 upregulated, 184 downregulated) | / | 27363013 |
4 paird BCa and BCN tissues | / | CircRNA microarray | GSE92675 | Bioinformatics analysis | / | 428 (261 upregulated, 167 downregulated) | hsa_circ_0011385 | 32015691 |