Table 1.
Differentially expressed lncRNAs in breast cancer vs normal
| Ensembl Gene ID | LNCipedia gene ID | log fold Tum vs Nor | fold Tum vs Nor | Tum vs Nor p value (raw) | Tum vs Nor p value (adj) | Status |
|---|---|---|---|---|---|---|
| ENSG00000230838.1 | LINC01614 | 2.341821475 | 5.069422738 | 5.65E-81 | 3.76E-79 | Up |
| ENSG00000203499.6 | lnc-MAPK15–6 | 1.767788642 | 3.405315908 | 3.82E-82 | 2.61E-80 | Up |
| ENSG00000223808.1 | AC044784.1, lnc-GATA3–7 | 1.610083258 | 3.052694584 | 1.25E-16 | 1.13E-15 | Up |
| ENSG00000259187.1 | lnc-TRIM69–1 | 1.590879481 | 3.01232928 | 1.81E-44 | 4.73E-43 | Up |
| ENSG00000261039.1 | LINC02544 | 1.398432474 | 2.636150018 | 7.47E-43 | 1.85E-41 | Up |
| ENSG00000258486.2 | lnc-LRR1–1 | 1.341780081 | 2.534638644 | 9.58E-26 | 1.33E-24 | Up |
| ENSG00000235123.1 | DSCAM-AS1 | 1.326866563 | 2.508572377 | 6.20E-13 | 4.46E-12 | Up |
| ENSG00000232638.1 | lnc-TAF3–1 | 1.21241703 | 2.317255348 | 1.40E-12 | 9.85E-12 | Up |
| ENSG00000272993.1 | lnc-HIST2H2AA4–1 | 1.185802408 | 2.274898863 | 1.78E-37 | 3.74E-36 | Up |
| ENSG00000243350.1 | GATA3-AS1 | 1.148653771 | 2.217069154 | 3.27E-13 | 2.39E-12 | Up |
| ENSG00000233627.2 | C4A-AS1 | 1.105244735 | 2.1513537 | 7.23E-16 | 6.20E-15 | Up |
| ENSG00000272666.1 | lnc-ODF3B-2 | 1.077677457 | 2.110635509 | 1.89E-19 | 1.98E-18 | Up |
| ENSG00000273272.1 | lnc-KLHDC7B-2 | 1.048411607 | 2.06825147 | 4.74E-19 | 4.87E-18 | Up |
| ENSG00000197308.4 | GATA3-AS1 | 1.044585641 | 2.062773821 | 9.84E-14 | 7.48E-13 | Up |
| ENSG00000223573.2 | lnc-TINCR-1 | 1.044336743 | 2.062417976 | 1.83E-17 | 1.73E-16 | Up |
| ENSG00000261716.1 | lnc-HIST2H2AA3–1 | 1.026047258 | 2.036437106 | 3.92E-35 | 7.61E-34 | Up |
| ENSG00000251141.1 | MRPS30-DT | 1.02054162 | 2.028680429 | 1.58E-07 | 7.36E-07 | Up |
| ENSG00000268913.1 | lnc-KCNK6–1 | 1.001295226 | 2.001796371 | 8.85E-23 | 1.07E-21 | Up |
| ENSG00000228223.1 | HCG11 | −1.017371351 | −2.024227373 | 2.51E-53 | 8.53E-52 | Down |
| ENSG00000235387.1 | na | −1.020539284 | −2.028677144 | 1.96E-59 | 7.71E-58 | Down |
| ENSG00000228162.1 | lnc-SPP2–3 | −1.043000128 | −2.060508089 | 9.21E-115 | 1.41E-112 | Down |
| ENSG00000272639.1 | AC015712.5 | −1.05048961 | −2.071232647 | 1.95E-49 | 5.91E-48 | Down |
| ENSG00000256916.1 | lnc-BIRC2–4 | −1.069704648 | −2.09900361 | 2.70E-26 | 3.84E-25 | Down |
| ENSG00000264868.1 | lnc-STEAP4–1 | −1.080167322 | −2.114281279 | 8.30E-28 | 1.25E-26 | Down |
| ENSG00000250538.1 | lnc-MAP9–2 | −1.096920898 | −2.138976893 | 1.05E-104 | 1.21E-102 | Down |
| ENSG00000243836.1 | WDR86-AS1 | −1.151180613 | −2.220955695 | 1.05E-116 | 1.73E-114 | Down |
| ENSG00000178947.8 | SMIM10L2A | −1.161204888 | −2.236441294 | 2.98E-104 | 3.39E-102 | Down |
| ENSG00000267194.1 | lnc-MAP2K6–5 | −1.162956703 | −2.239158576 | 5.17E-82 | 3.52E-80 | Down |
| ENSG00000233429.5 | HOTAIRM1 | −1.179118648 | −2.264384021 | 1.06E-87 | 8.10E-86 | Down |
| ENSG00000271738.1 | lnc-TSPAN14–1 | −1.191983318 | −2.284666075 | 1.60E-57 | 6.01E-56 | Down |
| ENSG00000214548.10 | lnc-DLK1–35 | −1.199354187 | −2.296368526 | 4.55E-110 | 6.30E-108 | Down |
| ENSG00000268164.1 | na | −1.204434904 | −2.304469867 | 2.30E-93 | 2.01E-91 | Down |
| ENSG00000260025.1 | lnc-FEZ2–7 | −1.20586992 | −2.306763212 | 5.20E-63 | 2.24E-61 | Down |
| ENSG00000245812.2 | LINC02202 | −1.227351365 | −2.341367447 | 7.20E-190 | 9.16E-187 | Down |
| ENSG00000262179.2 | MYMX | −1.233789324 | −2.351839037 | 8.67E-99 | 8.49E-97 | Down |
| ENSG00000186594.8 | MIR22HG | −1.237175737 | −2.357365953 | 4.69E-86 | 3.43E-84 | Down |
| ENSG00000270547.1 | LINC01235 | −1.239824501 | −2.361698012 | 6.31E-42 | 1.50E-40 | Down |
| ENSG00000255248.2 | MIR100HG | −1.261015808 | −2.396644303 | 3.69E-100 | 3.82E-98 | Down |
| ENSG00000272143.1 | FGF14-AS2 | −1.285565793 | −2.437776382 | 8.61E-100 | 8.62E-98 | Down |
| ENSG00000236333.3 | TRHDE-AS1 | −1.286805825 | −2.439872611 | 8.25E-157 | 3.50E-154 | Down |
| ENSG00000257877.1 | lnc-MAPKAPK5–1 | −1.291455467 | −2.447748728 | 4.55E-139 | 1.16E-136 | Down |
| ENSG00000267532.2 | lnc-SLC16A11–7 | −1.332087847 | −2.517667645 | 7.47E-147 | 2.50E-144 | Down |
| ENSG00000234456.3 | MAGI2-AS3 | −1.339265343 | −2.530224405 | 1.04E-159 | 4.58E-157 | Down |
| ENSG00000272327.1 | lnc-NRG1–3 | −1.352076922 | −2.552793645 | 8.52E-68 | 4.13E-66 | Down |
| ENSG00000258545.1 | RHOXF1-AS1 | −1.356631857 | −2.560866164 | 6.26E-114 | 9.16E-112 | Down |
| ENSG00000267653.1 | lnc-ABCA5–6 | −1.372853753 | −2.589823452 | 1.55E-108 | 2.04E-106 | Down |
| ENSG00000229108.1 | LINC02587 | −1.395635686 | −2.631044566 | 6.69E-164 | 3.41E-161 | Down |
| ENSG00000230148.4 | HOXB-AS1 | −1.426672474 | −2.68825962 | 2.86E-42 | 6.89E-41 | Down |
| ENSG00000228971.2 | lnc-RWDD3–5 | −1.450759321 | −2.733518843 | 2.47E-108 | 3.21E-106 | Down |
| ENSG00000249669.3 | CARMN | −1.474915257 | −2.779673159 | 1.36E-234 | 1.73E-230 | Down |
| ENSG00000230937.5 | MIR205HG | −1.500142384 | −2.828706285 | 1.10E-27 | 1.65E-26 | Down |
| ENSG00000180139.10 | ACTA2-AS1 | −1.563395501 | −2.955486233 | 1.37E-118 | 2.33E-116 | Down |
| ENSG00000231367.1 | lnc-ATL2–1 | −1.570416598 | −2.969904619 | 4.73E-83 | 3.27E-81 | Down |
| ENSG00000258663.1 | lnc-RTL1–1 | −1.573129653 | −2.975494916 | 3.68E-96 | 3.40E-94 | Down |
| ENSG00000255471.1 | lnc-FZD4–1 | −1.665847283 | −3.172999476 | 1.39E-151 | 5.52E-149 | Down |
| ENSG00000267519.2 | lnc-C19orf57 | −1.684869673 | −3.215113511 | 2.96E-81 | 1.98E-79 | Down |
| ENSG00000267047.1 | lnc-SLC16A11–7 | −1.783333068 | −3.442205117 | 1.36E-109 | 1.85E-107 | Down |
| ENSG00000238018.1 | lnc-RTN4–3 | −1.826091508 | −3.545751691 | 7.48E-143 | 2.21E-140 | Down |
| ENSG00000272761.1 | lnc-CCDC80–5 | −1.868752854 | −3.652167299 | 2.80E-47 | 7.92E-46 | Down |
| ENSG00000229645.4 | lnc-SYNE3–1 | −2.025990744 | −4.072714669 | 5.48E-134 | 1.32E-131 | Down |
| ENSG00000228639.2 | lnc-SLC39A11–10 | −2.048436659 | −4.136574768 | 6.54E-44 | 1.68E-42 | Down |
| ENSG00000254148.3 | lnc-SLC39A11–10 | −2.181617437 | −4.536618794 | 6.46E-45 | 1.71E-43 | Down |
| ENSG00000227591.1 | lnc-LAMB3–1 | −2.192798277 | −4.571914035 | 1.67E-169 | 1.12E-166 | Down |
| ENSG00000269936.2 | CARMN | −2.778459057 | −6.861191136 | 5.33E-170 | 3.77E-167 | Down |