Identification of astrocytoma associated genes including cell surface markers

Boon, Kathy; Edwards, Jennifer B; Eberhart, Charles G; Riggins, Gregory J

doi:10.1186/1471-2407-4-39

BMC Cancer

Table 2 Astrocytoma associated genes validated by real-time PCR.

From: Identification of astrocytoma associated genes including cell surface markers

Tag sequence	Symbol	Gene/Ontology	Mean tumor^a	Mean normal^b	% SAGE^c	% RT-PCR^d
		*Low grade astrocytomas (grade II)*
TGGGATTCCC	CHI3L2	Chitinase 3-like 2 / cartilage biogenesis, extra-cellular	10.8	0	25	57
ATCTGCTCGG	NMB	Neuromedin B / signal transduction, neuropeptide	9.1	0.1	38	57
GTCAGAACTT		cDNA FLJ22528 / unknown	5.8	0.3	38	43
GTACGGAGAT	VCAM1	Vascular cell adhesion molecule 1/ cell adhesion	4.4	0.2	50	29
		*Anaplastic astrocytomas (grade III)*
TGGGATTCCC	CHI3L2	Chitinase 3-like 2 / cartilage biogenesis, extra-cellular	12.3	0	30	63
GTGCGGAGGA	SAA1	Serum amyloid A1/ inflammatory response, lipid metabolism, extra-cellular	11.4	0	20	50
TTTGCACTTT	SMOC1	Secreted modular calcium-binding 1/ calcium ion binding	6.0	0	50	50
CCATTGTGGA	ADORA3	Adenosine A3 receptor / signal transduction, G-protein coupled receptor	4.1	0.1	60	50
ATCTGCTCGG	NMB	Neuromedin B/ signal transduction, neuropeptide	9.1	0.1	40	81
CGCGGCGGCG	CRF	C1q-related factor / function unknown	7.8	0.1	70	56
CCCAGTAAGA	CSRP2	Cysteine and glycine-rich protein 2 / cell differentiation/growth, LIM domain protein	9.4	0.2	80	44
GTACGGAGAT	VCAM1	Vascular cell adhesion molecule 1/ cell adhesion	3.0	0.2	20	69
		*Glioblastomas (grade IV)*
ACTGTCGCCA	AQP1	aquaporin 1 / water transport, ion channel	5.8	0	22	53
ATGTAGAGTG	TYMS	thymidylate synthetase / pyrimidine metabolism	7.1	0	67	71
CTCAGCAATG	TOP2A	topoisomerase (DNA) II alpha (170 kD) / DNA metabolism, isomerase	4.2	0	44	88
GTCAACAGTA	ABCC3	ATP-binding cassette, subfamily C, member 3/ multidrug resistance, transport protein	12.3	0	89	94
GTGCGGAGGA	SAA1	serum amyloid A1/ inflammatory response, lipid metabolism, extra-cellular	14.3	0	44	53
TGGGATTCCC	CHI3L2	chitinase 3-like 2 / cartilage biogenesis, extra-cellular	31.3	0	67	100
ATCTGCTCGG	NMB	Neuromedin B / signal transduction, neuropeptide	4.6	1	44	53
GTTTATGGAT	MGP	Matrix Gla protein /cartilage condensation, ossification, extra-cellular	7	2	56	35

All counts are normalized per 100,000 tags. ^aAverage tag count per individual tumor SAGE library. ^bAverage tag count per individual normal neural tissue SAGE library. ^cPercentage of tumor SAGE libraries with an expression of at least 5 or more counts. ^dPercentage of tumor samples in an independent panel of tumors with at least a 5-fold of more over-expression when compared to neural normal tissue samples in real-time PCR analysis.

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ISSN: 1471-2407

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