Table 5.
List of the 304 genes significantly up-regulated in BRCA1 mutated cell line (SL) compared to BRCA1 wild-type cell line (SB).
| SL | SB | SL | SB | |||
|---|---|---|---|---|---|---|
| PPP1R13B | 0.480 | 0.000 | PROCR | 6.688 | 1.963 | |
| F2RL1 | 2.620 | 0.000 | UPP1 | 1.905 | 0.561 | |
| PAX8 | 0.830 | 0.000 | TADA3 | 3.076 | 0.906 | |
| FBXL16 | 0.910 | 0.000 | FURIN | 3.987 | 1.184 | |
| F2R | 0.750 | 0.000 | ZNF337 | 1.604 | 0.479 | |
| UBE2D1 | 0.660 | 0.000 | TDP1 | 1.103 | 0.331 | |
| UBASH3B | 0.900 | 0.000 | SAC3D1 | 2.500 | 0.750 | |
| SMYD4 | 0.550 | 0.000 | ZBED4 | 2.813 | 0.854 | |
| DBNDD2 | 1.540 | 0.000 | RFWD3 | 3.386 | 1.030 | |
| S1PR1 | 2.750 | 0.000 | ACTR8 | 1.420 | 0.442 | |
| PLXNB1 | 0.240 | 0.000 | ZNF467 | 1.333 | 0.417 | |
| CDC42EP3 | 4.000 | 0.000 | ATG7 | 1.053 | 0.331 | |
| DLX5 | 1.200 | 0.000 | RAB11A | 7.800 | 2.500 | |
| PLAGL2 | 2.620 | 0.000 | LEO1 | 2.505 | 0.806 | |
| TMEM164 | 0.360 | 0.000 | PTPN23 | 1.141 | 0.369 | |
| SLC25A20 | 0.610 | 0.000 | CPT1A | 1.714 | 0.560 | |
| MRE11A | 0.260 | 0.000 | TRIP11 | 1.221 | 0.399 | |
| FLRT2 | 2.000 | 0.000 | CRTC3 | 0.659 | 0.217 | |
| LOC101448202 | 0.980 | 0.000 | ENO2 | 2.669 | 0.882 | |
| NR1I3 | 0.910 | 0.000 | RPLP1 | 14.833 | 4.938 | |
| SOX9 | 1.750 | 0.000 | ZNF346 | 0.875 | 0.292 | |
| PSTK | 0.680 | 0.000 | FAM72D | 1.000 | 0.333 | |
| HOXB9 | 1.120 | 0.000 | GSE1 | 1.125 | 0.377 | |
| SPP1 | 1.000 | 0.000 | EFTUD1 | 1.548 | 0.522 | |
| NOV | 1.140 | 0.000 | PTPN1 | 1.518 | 0.513 | |
| FAM173A | 0.970 | 0.000 | TCF7 | 1.475 | 0.500 | |
| DACT1 | 1.060 | 0.000 | CSTB | 21.750 | 7.417 | |
| SQRDL | 1.040 | 0.000 | PRSS23 | 10.250 | 3.500 | |
| PRSS12 | 0.440 | 0.000 | SEC22C | 1.535 | 0.526 | |
| SERPINE2 | 1.020 | 0.000 | SNAPC1 | 2.508 | 0.863 | |
| CIB2 | 0.970 | 0.000 | TGFB2 | 1.280 | 0.442 | |
| NHLRC2 | 0.310 | 0.000 | ZDHHC9 | 1.146 | 0.396 | |
| LMBRD1 | 0.570 | 0.000 | PPP1R13L | 1.224 | 0.424 | |
| SORT1 | 0.710 | 0.000 | PINX1 | 1.670 | 0.583 | |
| AKAP12 | 1.650 | 0.000 | TOR1A | 4.850 | 1.700 | |
| RGS4 | 1.880 | 0.000 | FEM1B | 6.750 | 2.375 | |
| CACNG7 | 1.140 | 0.000 | DDAH1 | 1.058 | 0.375 | |
| ANKRD50 | 1.480 | 0.000 | SORBS3 | 3.436 | 1.222 | |
| THBS1 | 0.980 | 0.000 | TGFB1 | 3.345 | 1.190 | |
| KRTAP2-3 | 3.250 | 0.000 | LASP1 | 1.970 | 0.702 | |
| FGF5 | 7.750 | 0.000 | C11orf71 | 3.500 | 1.250 | |
| PCCA | 0.288 | 0.000 | PALM2-AKAP2 | 1.069 | 0.383 | |
| LAMB3 | 0.318 | 0.000 | VAT1 | 4.042 | 1.450 | |
| RAD51D | 1.058 | 0.000 | MBOAT2 | 0.972 | 0.350 | |
| MMD | 0.300 | 0.000 | PDZD8 | 1.621 | 0.588 | |
| EVA1A | 2.000 | 0.000 | GPC1 | 2.712 | 0.994 | |
| PLA2G16 | 1.125 | 0.000 | ZFC3H1 | 0.919 | 0.337 | |
| GTDC2 | 2.750 | 0.000 | GTF2A2 | 5.250 | 1.938 | |
| IQCC | 0.838 | 0.000 | ZNF410 | 2.091 | 0.772 | |
| TCAIM | 0.546 | 0.000 | TMEM126B | 3.375 | 1.250 | |
| DCLRE1C | 0.854 | 0.000 | TMEM5 | 2.675 | 0.992 | |
| NUP210 | 0.394 | 0.000 | TRAPPC6B | 1.225 | 0.458 | |
| SLC38A6 | 0.482 | 0.000 | ZFR | 1.473 | 0.552 | |
| EEF1A2 | 1.529 | 0.000 | MDM2 | 1.375 | 0.517 | |
| PODXL | 6.777 | 0.167 | GOLPH3 | 2.542 | 0.958 | |
| SIX1 | 3.000 | 0.125 | NINJ1 | 1.875 | 0.708 | |
| RAD18 | 0.879 | 0.050 | TNNT1 | 2.757 | 1.048 | |
| BAK1 | 1.458 | 0.083 | USP4 | 1.222 | 0.464 | |
| ATP5O | 1.167 | 0.083 | TRIP13 | 1.326 | 0.504 | |
| SPOCK1 | 1.079 | 0.083 | LRIG1 | 0.539 | 0.205 | |
| FXYD5 | 1.217 | 0.100 | ALDH5A1 | 2.469 | 0.948 | |
| ZNF12 | 1.500 | 0.125 | CSTF2T | 3.250 | 1.250 | |
| SLC19A2 | 1.700 | 0.150 | CHCHD3 | 1.263 | 0.488 | |
| HOXC10 | 1.375 | 0.125 | SIN3A | 3.334 | 1.293 | |
| TAGLN | 3.167 | 0.292 | FIBP | 2.121 | 0.826 | |
| TSR2 | 1.333 | 0.125 | TSC22D4 | 1.708 | 0.667 | |
| GEMIN2 | 0.521 | 0.050 | GINS1 | 2.704 | 1.063 | |
| FNDC1 | 1.734 | 0.167 | CD9 | 12.719 | 5.000 | |
| TAF3 | 0.646 | 0.063 | HYAL2 | 2.000 | 0.792 | |
| FAN1 | 0.831 | 0.083 | GNA13 | 3.938 | 1.563 | |
| ADCK1 | 1.417 | 0.143 | FLNB | 1.526 | 0.606 | |
| TMOD3 | 2.295 | 0.250 | ABHD6 | 0.942 | 0.375 | |
| RYBP | 1.708 | 0.188 | EZR-AS1 | 6.250 | 2.500 | |
| CTSH | 0.567 | 0.063 | NBEAL2 | 0.646 | 0.258 | |
| RAB27A | 0.750 | 0.083 | KIF7 | 1.077 | 0.431 | |
| FAM174A | 1.125 | 0.125 | YME1L1 | 5.181 | 2.073 | |
| ZBTB47 | 0.742 | 0.083 | NAP1L1 | 2.651 | 1.063 | |
| ALOX12B | 1.104 | 0.125 | SRP54 | 2.849 | 1.149 | |
| ITPKC | 0.521 | 0.063 | SEL1L | 1.385 | 0.559 | |
| CLP1 | 1.000 | 0.125 | SEC23A | 3.282 | 1.325 | |
| GCSH | 1.292 | 0.167 | EAPP | 2.067 | 0.838 | |
| ZDHHC3 | 1.746 | 0.229 | TTC8 | 1.029 | 0.418 | |
| MST4 | 0.750 | 0.100 | TAF1D | 1.963 | 0.800 | |
| FAM102A | 1.369 | 0.188 | IKBIP | 5.313 | 2.167 | |
| MORC4 | 0.876 | 0.121 | IDH2 | 2.602 | 1.064 | |
| HSBP1 | 2.958 | 0.417 | NUDT5 | 0.958 | 0.400 | |
| STC1 | 10.625 | 1.500 | RALY | 6.750 | 2.821 | |
| ATE1 | 1.598 | 0.226 | VIM | 118.611 | 49.583 | |
| ZNF672 | 1.750 | 0.250 | PHF7 | 0.893 | 0.375 | |
| UFD1L | 0.575 | 0.083 | SVIL | 1.001 | 0.421 | |
| CTNNBIP1 | 5.083 | 0.750 | MET | 2.561 | 1.084 | |
| PMEPA1 | 0.833 | 0.125 | TGFBR2 | 2.798 | 1.185 | |
| RAB8B | 0.883 | 0.133 | SMARCC1 | 1.714 | 0.733 | |
| TDRKH | 0.960 | 0.146 | ROCK1 | 0.875 | 0.375 | |
| TK2 | 1.092 | 0.167 | NFATC3 | 1.302 | 0.558 | |
| FHL1 | 0.792 | 0.125 | RRP1B | 3.012 | 1.303 | |
| PTPN2 | 1.467 | 0.244 | NUDT21 | 6.107 | 2.643 | |
| RAB13 | 2.646 | 0.458 | SEC13 | 4.444 | 1.929 | |
| HDAC9 | 0.713 | 0.125 | LARP6 | 7.625 | 3.313 | |
| ATP1A3 | 0.225 | 0.042 | ANP32B | 2.036 | 0.887 | |
| ZNF529 | 0.875 | 0.167 | TPX2 | 8.578 | 3.813 | |
| OCIAD2 | 2.833 | 0.542 | KIF5B | 5.363 | 2.392 | |
| RAP1GAP2 | 1.389 | 0.266 | DHCR24 | 2.361 | 1.054 | |
| RAB5A | 3.104 | 0.604 | ZC3H14 | 2.023 | 0.903 | |
| TTLL5 | 0.736 | 0.144 | NPC2 | 7.950 | 3.550 | |
| S100A2 | 5.625 | 1.125 | UNC45A | 4.306 | 1.924 | |
| DEDD | 3.063 | 0.625 | NHLRC3 | 0.838 | 0.375 | |
| SIMC1 | 0.700 | 0.146 | TRPC4AP | 3.223 | 1.450 | |
| RPSA | 4.771 | 1.000 | ATP6V0A2 | 0.702 | 0.317 | |
| COMMD7 | 2.185 | 0.467 | APEX2 | 2.196 | 0.992 | |
| SH3KBP1 | 1.694 | 0.371 | FBXO34 | 4.417 | 2.000 | |
| SPTLC2 | 1.413 | 0.313 | TERF2IP | 8.083 | 3.667 | |
| TMEM251 | 3.375 | 0.750 | RINT1 | 1.524 | 0.692 | |
| SRPX | 2.377 | 0.533 | SUPV3L1 | 1.802 | 0.821 | |
| EIF1AD | 1.479 | 0.333 | UBP1 | 2.618 | 1.196 | |
| ASNA1 | 5.226 | 1.192 | DARS2 | 1.533 | 0.708 | |
| THAP10 | 2.375 | 0.542 | HSD17B11 | 1.730 | 0.800 | |
| PPP3CC | 0.770 | 0.179 | MEX3B | 8.375 | 3.875 | |
| ZKSCAN1 | 1.063 | 0.250 | KIFC3 | 1.531 | 0.710 | |
| PLXDC1 | 1.908 | 0.458 | SMC2 | 1.902 | 0.883 | |
| TSPAN31 | 1.342 | 0.325 | DDX18 | 2.071 | 0.962 | |
| PTPRF | 3.353 | 0.813 | ZBTB5 | 1.792 | 0.833 | |
| TMED10 | 4.875 | 1.188 | POLG | 2.531 | 1.177 | |
| UXT | 1.188 | 0.292 | SNUPN | 3.223 | 1.500 | |
| DYNLRB1 | 4.292 | 1.063 | MFGE8 | 1.527 | 0.714 | |
| WSB2 | 1.963 | 0.492 | CNOT10 | 1.595 | 0.746 | |
| UBXN2A | 0.729 | 0.183 | ATG4B | 0.851 | 0.400 | |
| VTI1B | 2.292 | 0.583 | SLC30A6 | 1.250 | 0.590 | |
| ITPR3 | 2.743 | 0.707 | UBR7 | 1.366 | 0.650 | |
| RAB39B | 3.375 | 0.875 | RAB1A | 5.250 | 2.500 | |
| SS18 | 0.864 | 0.225 | REEP4 | 2.141 | 1.021 | |
| SLC2A1 | 2.184 | 0.579 | PGM3 | 1.866 | 0.890 | |
| CTGF | 14.850 | 3.950 | STYX | 1.004 | 0.479 | |
| PRKACA | 3.103 | 0.825 | PKM | 52.114 | 24.886 | |
| PRPS1L1 | 7.500 | 2.000 | AGPAT2 | 2.267 | 1.083 | |
| PIP4K2A | 1.003 | 0.271 | QRICH1 | 3.250 | 1.558 | |
| ITPK1 | 1.982 | 0.536 | CENPN | 2.008 | 0.964 | |
| ELK1 | 2.125 | 0.575 | BRD3 | 1.119 | 0.539 | |
| PWWP2A | 1.375 | 0.375 | SLC38A1 | 1.973 | 0.955 | |
| RAC1 | 4.458 | 1.217 | RARS | 2.777 | 1.344 | |
| SMC5 | 0.835 | 0.228 | MYBL2 | 1.482 | 0.718 | |
| RAB18 | 3.279 | 0.905 | PPM1G | 7.431 | 3.600 | |
| BAHD1 | 1.075 | 0.300 | RPL27A | 3.508 | 1.700 | |
| ZBTB1 | 6.208 | 1.750 | HDGFRP3 | 5.250 | 2.550 | |
| EPC1 | 0.990 | 0.281 | AQR | 0.596 | 0.292 | |
| VPS18 | 0.950 | 0.271 | GADD45A | 15.313 | 7.500 | |
| CHMP2B | 1.833 | 0.525 | QARS | 2.197 | 1.089 | |
| RANBP10 | 1.012 | 0.292 | NRP1 | 1.489 | 0.738 | |
| KIF3B | 2.313 | 0.667 | KIF23 | 4.444 | 2.208 | |
| PUSL1 | 1.292 | 0.375 | HK1 | 3.444 | 1.713 | |
| ADAM19 | 1.526 | 0.444 | SNX3 | 9.000 | 4.500 | |
| GORAB | 1.708 | 0.500 | TRAK1 | 2.001 | 1.001 |
RNA-Seq results are presented as RPKM values.