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Table 1 Forty one mRNA biomarkers with relationship to coexpressed lncRNAs (qvalue< 0.05 for mRNA and qvalue < 0.05 for lncRNA)

From: Identification of long non-coding RNA-related and –coexpressed mRNA biomarkers for hepatocellular carcinoma

mRNA Gene Gene expression mRNA qvalue lncRNA Probe name relationship lncRNA expression lncRNA qvalue
NM_000787 DBH down 0.0153 ASHG19A3A038177 natural antisense down 0.0317
NM_015987 HEBP1 down 0.0153 ASHG19A3A048399 bidirectional down 0.0252
NM_001172440 ENDOU down 0.0161 ASHG19A3A055103 intronic antisense down 0.0285
NM_001130997 FAM58A up 0.0170 ASHG19A3A041726 bidirectional up 0.0331
NM_000075 CDK4 up 0.0216 ASHG19A3A048765 natural antisense up 0.0396
NM_000744 CHRNA4 down 0.0218 ASHG19A3A018571 intronic antisense down 0.0285
NM_003074 SMARCC1 up 0.0231 ASHG19A3A022584 intronic antisense up 0.0285
NM_025139 ARMC9 up 0.0240 ASHG19A3L0001156 sense overlap up 0.0472
NM_014053 FLVCR1 up 0.0270 ASHG19A3A007495 bidirectional up 0.0479
NM_000348 SRD5A2 down 0.0271 ASHG19A3L0001181 exon sense-overlapping down 0.0357
NM_001012321 RPSA up 0.0279 ASHG19A3A020907 natural antisense down 0.0293
NM_001334 CTSO down 0.0284 ASHG19A3A026206 natural antisense down 0.0415
NM_030789 HM13 up 0.0284 ASHG19A3A017537 intronic antisense down 0.0479
NM_000454 SOD1 down 0.0311 ASHG19A3A018779 bidirectional down 0.0468
NM_002394 SLC3A2 up 0.0314 ASHG19A3A000043 bidirectional up 0.0291
NM_144778 MBNL2 down 0.0315 ASHG19A3L0000699 exon sense-overlapping down 0.0439
NM_001146279 SHBG down 0.0315 ASHG19A3A007528 exon sense-overlapping down 0.0380
NM_003631 PARG up 0.0328 ASHG19A3A043936 intronic antisense up 0.0289
NM_000182 HADHA down 0.0330 ASHG19A3A015417 natural antisense up 0.0489
NM_003668 MAPKAPK5 up 0.0333 ASHG19A3A055106 natural antisense up 0.0364
NM_016065 MRPS16 up 0.0338 ASHG19A3A044109 bidirectional up 0.0362
NM_053031 MYLK down 0.0338 ASHG19A3A023105 intronic antisense up 0.0285
NM_001040058 SPP1 up 0.0355 ASHG19A3A024471 natural antisense up 0.0356
NM_145697 NUF2 up 0.0355 ASHG19A3A054586 bidirectional up 0.0412
NM_172250 MMAA down 0.0372 ASHG19A3A024820 natural antisense down 0.0409
NM_001003789 RABL2B down 0.0378 ASHG19A3A020631 bidirectional up 0.0252
NM_001040060 SPP1 up 0.0378 ASHG19A3A024471 natural antisense up 0.0356
NM_207304 MBNL2 down 0.0379 ASHG19A3L0000699 exon sense-overlapping down 0.0439
NM_020791 TAOK1 up 0.0382 ASHG19A3A009329 exon sense-overlapping up 0.0412
NM_016632 ARL17A up 0.0395 ASHG19A3A008470 intron sense-overlapping up 0.0252
NM_014583 LMCD1 up 0.0397 ASHG19A3A020672 bidirectional down 0.0311
NM_003937 KYNU down 0.0405 ASHG19A3A014435 natural antisense down 0.0252
NM_000582 SPP1 up 0.0418 ASHG19A3A024471 natural antisense up 0.0356
NM_014389 PELP1 up 0.0419 ASHG19A3A008987 natural antisense up 0.0437
NM_148921 EPN2 down 0.0433 ASHG19A3A008042 natural antisense up 0.0329
NM_001165031 DTYMK up 0.0442 ASHG19A3A007748 exon sense-overlapping up 0.0285
NM_002482 NASP up 0.0448 ASHG19A3A044925 natural antisense up 0.0489
NM_000128 F11 down 0.0449 ASHG19A3A025095 natural antisense down 0.0252
NM_002022 FMO4 down 0.0468 ASHG19A3A034907 intron sense-overlapping down 0.0446
NM_001127603 NMRK1 down 0.0470 ASHG19A3A037588 exon sense-overlapping down 0.0331
NM_003889 NR1I2 down 0.0471 ASHG19A3A021464 natural antisense down 0.0291