Delineation of a SMARCA4-specific competing endogenous RNA network and its function in hepatocellular carcinoma

Table 1 Correlation analysis of upstream miRNAs of SMARCA4

Gene	miRNA	Correlation	P value
SMARCA4	hsa-miR-139-5p	-0.43071	0
SMARCA4	hsa-miR-101-3p	-0.35574	2.43E-12
SMARCA4	hsa-miR-144-3p	-0.14422	0.005486
SMARCA4	hsa-miR-206	0.010846	0.835292
SMARCA4	hsa-miR-582-5p	0.011482	0.825772
SMARCA4	hsa-miR-452-5p	0.013887	0.789959
SMARCA4	hsa-miR-1-3p	0.059664	0.252296
SMARCA4	hsa-miR-3918	0.079807	0.12543
SMARCA4	hsa-miR-489-3p	0.084322	0.105369
SMARCA4	hsa-miR-191-5p	0.093233	0.073272
SMARCA4	hsa-miR-199a-5p	0.113993	0.028396
SMARCA4	hsa-miR-942-5p	0.143132	0.005851
SMARCA4	hsa-miR-7-5p	0.176945	0.000628
SMARCA4	hsa-miR-155-5p	0.183662	0.000392
SMARCA4	hsa-miR-210-3p	0.199171	0.000118
SMARCA4	hsa-miR-296-5p	0.276951	6.11E-08
SMARCA4	hsa-miR-423-5p	0.280627	4.59E-08
SMARCA4	hsa-miR-199b-5p	0.281593	3.59E-08
SMARCA4	hsa-miR-132-3p	0.340145	2.39E-11
SMARCA4	hsa-miR-212-3p	0.350525	3.89E-12

Table 2 Correlation analysis of upstream long noncoding RNAs of SMARCA4

lncRNA	miRNA	Correlation	P value
SNHG3	hsa-miR-139-5p	-0.427905007	0
THUMPD3-AS1	hsa-miR-139-5p	-0.383988472	2.16E-14
NUTM2B-AS1	hsa-miR-139-5p	-0.291498033	1.30E-08
NUTM2A-AS1	hsa-miR-139-5p	-0.249437433	1.28E-06
THRB-IT1	hsa-miR-139-5p	-0.188289895	0.000270315
TMEM147-AS1	hsa-miR-139-5p	-0.182642718	0.00042249
ERICD	hsa-miR-139-5p	-0.178277693	0.00058107
LINC00641	hsa-miR-139-5p	-0.168729363	0.001138184
LINC00534	hsa-miR-139-5p	-0.166826573	0.001278717
HCP5	hsa-miR-139-5p	-0.164085024	0.001559293
LINC00630	hsa-miR-139-5p	-0.162703	0.001689401
LINC00943	hsa-miR-139-5p	-0.162451245	0.001718019
LINC01579	hsa-miR-139-5p	-0.158658927	0.002206361
RN7SL832P	hsa-miR-139-5p	-0.142762414	0.00594314
LINC01278	hsa-miR-139-5p	-0.132322803	0.010883486
XIST	hsa-miR-139-5p	-0.099194046	0.056613465
N4BP2L2-IT2	hsa-miR-139-5p	-0.086285707	0.097463633
SLIT2-IT1	hsa-miR-139-5p	-0.048699898	0.35022861
TTN-AS1	hsa-miR-139-5p	-0.023141977	0.657115792
SH3BP5-AS1	hsa-miR-139-5p	-0.004375804	0.933116376
LINC02360	hsa-miR-139-5p	0.007581107	0.88444703
NEAT1	hsa-miR-139-5p	0.011359844	0.827521554
DHRS4-AS1	hsa-miR-139-5p	0.194299289	0.000174124
LINC00885	hsa-miR-139-5p	0.221316524	1.74E-05

lncRNA: Long noncoding RNAs.

Table 3 Correlation of SMARCA4 with an increased expression of the immune-related genes

Immune cell	Gene	Correlation	P value
B cell	CD19	0.229808	7.13E-06
B cell	CD79A	0.240046	2.66E-06
CD8+ T cell	CD8A	0.199613	0.000105
CD8+ T cell	CD8B	0.169187	0.001021
CD4+ T cell	CD4	0.159602	0.001983
M1 macrophage	NOS2	0.056408	0.276552
M1 macrophage	IRF5	0.351521	3.50E-12
M1 macrophage	PTGS2	0.218218	2.07E-05
M2 macrophage	CD163	0.041803	0.420023
M2 macrophage	VSIG4	0.098825	0.05623
M2 macrophage	MS4A4A	0.071163	0.169562
Neutrophil	CEACAM8	0.089485	0.083947
Neutrophil	ITGAM	0.274952	7.38E-08
Neutrophil	CCR7	0.155459	0.002598
Dendritic cell	HLA-DPB1	0.226945	9.85E-06
Dendritic cell	HLA-DQB1	0.189598	0.000232
Dendritic cell	HLA-DRA	0.195914	0.000141
Dendritic cell	HLA-DPA1	0.202748	8.12E-05
Dendritic cell	CD1C	0.231224	6.24E-06
Dendritic cell	NRP1	0.358895	1.13E-12
Dendritic cell	ITGAX	0.292296	9.88E-09