Genes encoding Pir51, Beclin 1, RbAp48 and aldolase b are up or down-regulated in human primary hepatocellular carcinoma

Table 1 Primer sequences and PCR conditions used for synthesis of amplicons applied as probes in Northern blot and RT-PCR

Genes name	Primer (5’-3’)	PCR fragment size (bp)	Annealing temperature	Number of cycles
Pir51	F GTGGAAGATGATGTTGGTGGTG	527	58	32
	R AAGGCGGAGACTCTGATTGG
RbAp48	F GAACTGCCTTTCTTTCAATC	826	58	30
	R ATGGCTCAGACACCTACCTC
Beclin 1	F CTTACCACAGCCCAGGCGAAAC	814	58	30
	R GCCAGAGCATGGAGCAGCAA
Aldolase b	F GCCACTCTCAACCTCAATGC	423	58	32
	R TCTCCTTCCCAACCTACCAC
β-actin	F TGACGGGGTCACCCACACTGTGCC	666	60	25
	R CTTAGAAGCATTGCGGTGGACGATG

Table 2 Classification of number of known functioning genes differentially expressed (> 4 folds) in HCC

Gene functions	Number of down-regulated genes in HCC	Number of up-regulated genes in HCC
Cell division	17	14
Cell, organism defense	39	24
Metabolic enzymes, transporters ion channels	17	9
Nuclear proteins (transcription factors, DNA processing enzymes)	21	20
Cell structure, extracellular matrix	10	6
Cell signalling, communication	37	26
EST	41	53
Other genes	84	102

Table 3 Genes showing differential expression levels in liver cancerous tissue and adjacent normal liver tissue

Gene Name	GenBank access number	Density in filter for tumor liver	Density in filter for normal liver	Fold change by microarray	Fold change by Northern blot
Beclin 1	AF077301	6971	0	99	99
RbAp48	X74262	14029.9	0	99	99
aldolase b	XM_005563	2765	26589	-9.65	-4.7
Pir51	NM_006479	8654.61	323.2	26.8	5.7