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Table 1 List of genes at the hotspot regions of iPSC-specific CNVs

From: Copy number variant hotspots in Han Taiwanese population induced pluripotent stem cell lines - lessons from establishing the Taiwan human disease iPSC Consortium Bank

  iPSCs (n = 82) Control (n = 1093)  
Chr Start End Locus Duplication Deletion Duplication Deletion P value Genes Contained
4 62690392 62945462 q13.1 5 0 1 0 < 0.0001 ADGRL3, ADGRL3-AS1
4 92930866 94220988 q22.1–q22–2 38 2 0 1 < 0.0001 GRID2, LNCPRESS2
5 147202104 147449067 q32 8 0 0 0 < 0.0001 SPINK5, SPINK1, SCGB3A2, C5orf46
6 94291842 94849832 q16.1 22 0 0 0 < 0.0001 TSG1
7 121549706 122245008 q31.32 12 0 1 0 < 0.0001 PTPRZ1, CADPS2, AASS, FEZF1-AS1, FEZF1
10 54932474 55398702 q21.1 6 0 0 0 < 0.0001 NA
13 55695571 56471149 q21.1 15 0 0 2 < 0.0001 MIR5007
20 29620219 31558271 q11.21 5 0 0 0 < 0.0001 MYLK2, EFCAB8, BCL2L1, HM13, FRG1BP, FRG1DP, DEFB122, COMMD7, POFUT1, NOL4L, HCK, PDRG1, NOL4L-DT, MLLT10P1, DEFB115, DEFB116, DEFB119, DEFB118, DEFB121, DEFB124, DEFB123, LINC00028, REM1, ID1, HM13-AS1, MIR3193, COX4I2, TPX2, ABALON, DUSP15, FOXS1, TTLL9, MIR7641–2, CCM2L, XKR7, PLAGL2, TM9SF4, TSPY26P, KIF3B, MIR1825, ASXL1, LOC101929698, C20orf203, DNMT3B, MAPRE1
X 112880475 113795367 q23 27 0 0 0 < 0.0001 XACT
X 114766295 114897324 q23 8 0 0 0 < 0.0001 PLS3,PLS3-AS1
  1. * For CNVs at X-chromosome, we only compare female iPSC (n = 42) and female controls (n = 568)