Transcription analysis in the MeLiM swine model identifies RACK1 as a potential marker of malignancy for human melanocytic proliferation

Egidy, Giorgia; Julé, Sophia; Bossé, Philippe; Bernex, Florence; Geffrotin, Claudine; Vincent-Naulleau, Silvia; Horak, Vratislav; Sastre-Garau, Xavier; Panthier, Jean-Jacques

doi:10.1186/1476-4598-7-34

Molecular Cancer

Table 2 SAGE tags significantly decreased in metastatic melanoma cells (MMC) compared to normal melanocytes (NM)

From: Transcription analysis in the MeLiM swine model identifies RACK1 as a potential marker of malignancy for human melanocytic proliferation

GATC preceded Tag	Count		p value	GenBank match [accession number]
	NM	MMC
Translation, ribosomal structure and biogenesis
GTCGTTCTGG	52	29	0.015	Ss eukaryotic translation elongation factor 1 alpha 1 [NM_001097418]
GACTTTGACA	6	0	0.016	Ss cDNA [BX676185] homolog to Hs eukaryotic translation initiation factor 3 subunit k, eIF3k [AY245432]
TGTCAAAAAA	22	9	0.025	Ss ribosomal protein L29, RPL29 [NM_213950]
TCTGGAAAGA	24	11	0.027	Ss cDNA [BX675247] homolog to Hs ribosomal protein S2, RPS2 [BC019021]
TCTGACTACC	5	0	0.031	Ss cDNA [BX922533] homolog to Hs mitochondrial ribosomal protein L40, MRPL40 [NM_003776]
AGAAAGCTGT	9	2	0.042	Ss ribosomal protein L6, RPL6 [NM_001044542]
AGCGTTCAGC	39	23	0.049	Ss 40S ribosomal protein S16, RPS16 [AY550068]
Transcription
AGGGGAAATG	11	3	0.041	Ss cDNA [BX665090] homolog to Hs small nuclear ribonucleoprotein D3, [BC034447]
Secondary metabolites biosynthesis
ACCCTGGCTG	90	46	0.000	Ss cDNA [BX 920958] homolog to Equus caballus melanocyte protein 17 precursor, PMEL17 [AF076780]
CACTGCTCAA	16	6	0.038	Ss glycoprotein [transmembrane] nmb GPNMB [NM_001098584]
Energy production and conversion
CTAAAAAAAA	18	5	0.006	Ss mitochondrial COX III [AJ953126]
TCAGAAGAGA	15	4	0.012	Ss cDNA [CN155299] homolog to Hs ATP synthase, H+ transporting, mitochondrial F1 complex, a subunit, isoform 1, ATP5A1 [BC008028]
TCACCTGGGG	9	2	0.042	Ss cDNA [CB477260] homolog to Hs ATP synthase, H+ transporting, mitochondrial F1 complex, epsilon subunit, ATPE [BC003671]
Cell division
CCCAACAATG	5	0	0.031	Ss beta 5-tubulin, [NM_001044612]
Posttranslational modification, protein turnover
TCTAAAGCGG	7	0	0.009	Ss cDNA [BX672659] homolog to Hs glucose regulated protein 58 KD, GRP58 [NM_005313]
AGTGGCTTTG	7	1	0.043	Ss cDNA [CJ007805] homolog to Hs proteasome [prosome, macropain] subunit, beta type, 4, HsN3 [BC008314]
AGGGAATGGA	5	0	0.031	Ss cathepsin B, CTSB [NM_001097458]
General prediction only
AGCATCCAGA	5	0	0.031	Ss cDNA [BX925627] homolog to Hs nuclear distribution gene C homolog, NUDC [NM_006600]
CAGAGCTGCC	5	0	0.031	Ss cDNA [CK459123] homolog to Hs SET binding factor 1, SBF1 [NM_002972]
CTAGACGACT	7	1	0.043	Ss cDNA [BX676609] homolog to Hs arginine-rich, mutated in early stage tumors, ARMET [NM_006010]
Function unknown
AGATGGCCAG	7	0	0.009	No reliable matches
AGCTTAAGCA	6	0	0.016	Ss cDNA [BX922388]
ATGTGCCTGG	6	0	0.016	Ss cDNA [BX674457]
AGACTTTTAA	6	0	0.016	Ss cDNA [EW337487]
TATGGGGGTC	6	0	0.016	Ss cDNA [EW673617]
AGCCTGGACC	5	0	0.031	No reliable matches
CCTAGCCTGG	5	0	0.031	Ss cDNA [DY430777]
TGGCATGGCT	5	0	0.031	Ss cDNA [BX920198]
AGCTGTTCTA	11	3	0.041	Ss cDNA [BX670542]
CACCCGCAAT	9	2	0.042	No reliable matches
AGTCCCTGTG	7	1	0.043	No reliable matches
TTTGCAAGGG	7	1	0.043	Ss cDNA [CJ006347]

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ISSN: 1476-4598

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