[No authors listed]
Human hepatocellular carcinoma (HCC) is one of the most common cancers worldwide. In this work, we report on a comprehensive characterization of gene expression profiles of hepatitis B virus-positive HCC through the generation of a large set of 5'-read expressed sequence tag (EST) clusters (11,065 in total) from HCC and noncancerous liver samples, which then were applied to a cDNA microarray system containing 12,393 genes/ESTs and to comparison with a public database. The commercial cDNA microarray, which contains 1,176 known genes related to oncogenesis, was used also for profiling gene expression. Integrated data from the above approaches identified 2,253 genes/ESTs as candidates with differential expression. A number of genes related to oncogenesis and hepatic function/differentiation were selected for further semiquantitative reverse transcriptase-PCR analysis in 29 paired HCC/noncancerous liver samples. Many genes involved in cell cycle regulation such as cyclins, cyclin-dependent kinases, and cell cycle negative regulators were deregulated in most patients with HCC. Aberrant expression of the Wnt-beta-catenin pathway and enzymes for DNA replication also could contribute to the pathogenesis of HCC. The alteration of transcription levels was noted in a large number of genes implicated in metabolism, whereas a profile change of others might represent a status of dedifferentiation of the malignant hepatocytes, both considered as potential markers of diagnostic value. Notably, the altered transcriptome profiles in HCC could be correlated to a number of chromosome regions with amplification or loss of heterozygosity, providing one of the underlying causes of the transcription anomaly of HCC.
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TSTD1, LOC100288798, PROX1-AS1, LRCOL1, TCEAL3-AS1, LOC101927269, LOC101928858, SPRY1, LINC01595, LOC105370333, SEC62-AS1, KDELR2, MED8, PGLYRP2, SMYD4, ADH4, LINC00261, C12orf66, TMEM99, RNF38, ZNF384, ABHD3, DMPK, AGTR1, EMP2, ETS2, ALDOB, ELL2, SLC35A3, C2orf72, ANAPC13, GCSH, ANG, A1CF, GYS2, HOXA10, HPR, HPX, CCDC158, APOC1P1, APOC2, LOC345051, APOC4, IGFBP1, ITPA, C3P1, LECT2, ARHGDIB, LIPC, MGST1, MRC1, CDNF, ORM2, PRDX1, GOLGA7, DCXR, HERC5, GMPR2, CSAD, PDGFRA, ATP6V1C1, RAB24, PON1, PON3, ACSM5, PRKAB2, MASP1, SLC2A4RG, DANCR, MS4A7, RAB27A, UBL5, RNASE4, RPS6KA3, BDH1, RPS26, SAA4, ERAP2, SLC22A1, SOD2, TNR, C5, MYH14, CDADC1, SORBS2, CAV2, SERPINA6, HERC2, SEC16B, DSEL, CD63
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