Table 5

A short list of down regulated genes and supporting evidence for their involvement in AD
Item	Name	Acce #	Gene Description	Evidence for Down Regulation

1	APP	BC065529	amyloid beta (A4) precursor protein	literature, [2], Down regulation in DS, [65]
2	CAST	NM_015576	CAZ-associated structural protein	literature, [40]
3	CD59	BC001506	CD59 antigen p18-20	literature, [66]
4	CDC10	BX648365	cell division cycle 10	literature, [67]
5	HK1	NM_033500	hexokinase 1	literature, [68]
6	PFKP	BC002536	phosphofructokinase	literature, [37]
7	PTPN11	NM_002834	protein tyrosine phosphatase, non-receptor type 11	literature, [69]
8	RPIP8	BC013240	RaP2interacting protein 8	literature, [3]
9	SCD	NM_005063	stearoyl-CoA desaturase	literature, [70]
10	SERPINE2	NM_006216	serine (or cysteine) proteinase inhibitor, clade E, member 2	literature, [41]
11	UCHL1	BC000332	ubiquitin thiolesterase, UCHL1	literature [71,72].
12	SNCA	NM_000345	synuclein, alpha	qRT-PCR, literature, [2]
13	A2M	BC040071	alpha-2-macroglobulin	mutation of A2M is linked to AD, [16]
14	BRI3	BC018737	Brain protein I3	mutation of BRI2 is liked to neurodegeneration[19]
15	EEF1A1	BC009875	Eukaryotic translation elongation factor 1 alpha 1	mutation, mutant mice exhibit neurodegeneration, [14]
16	EIF2S2	BC000461	Eukaryotic translation initiation factor 2, subunit 2 beta	mutation, mutations causing childhood ataxia, [15]
17	MAPT	BC032572	microtubule-associated protein tau, long splice form	mutation, mutation in exon 9–13 cause neurodegenerative diseases including AD, [18]
18	UBB	BC038999	ubiquitin B	mutation, frame shift mutation fund in AD, [17]
19	ATP2B1	AK024895	ATPase, Ca++ transporting, plasma membrane 1	inferred, expression is repressed by stress, [21]
20	CDK5R1	BC035448	cyclin-dependent kinase 5, regulatory subunit 1	inferred, [73], and in ethanol induced neurodegeneration, [23]
21	CPLX1	BC002471	complexin 1	inferred, Down regulated in schizophrenia, [24]
22	NES	AF086454	nestin	inferred, decreased in injured aged hippocampus, [20]
23	RAD21	NM_006265	RAD21 homolog	inferred, Down regulated by hypoxia, [26]
24	ST13	BC052982	suppression of tumorigenicity 13	inferred, rescue phosphorylated tau-induced cell death [25]
25	TAGLN3	AF303058	transgelin 3	inferred, down regulated in schizophrenia, [22]
26	ARF6	BC030291	ADP-ribosylation factor 6	qRT-PCR
27	BCAS1	NM_003657	Breast carcinoma amplified sequence 1	qRT-PCR
28	CKIP-1	BC010149	CK2 interacting protein 1	qRT-PCR
29	CRI1	AL357456	CREBP/EP300 inhibitory protein 1	qRT-PCR
30	DEAF1	BC053322	deformed epidermal autoregulatory factor 1	qRT-PCR
31	SCA1	NM_000332	spinocerebellar ataxia 1	qRT-PCR
32	SV2A	BC045111	synaptic vesicle glycoprotein 2A	qRT-PCR
33	TPI1	BC017917	triosephosphate isomerase	qRT-PCR
34	UBE2B	NM_003337	ubiquitin-conjugating enzyme E2B	qRT-PCR
35	RELN	NM_005045	reelin	qRT-PCR and inferred, down regulation or mutation cause autistic disorder, [27]
36	PRKCE	BC054052	protein kinase C, epsilonY	qRT-PCR and inferred, suppresses Aβ production, [28]
37	SYT4	BC036538	synaptotagmin IV	qRT-PCR, inferred, SYT(unspecified isoform) is down regulated in CA1 of AD brains, [2]

Liu et al. BMC Genomics 2006 7:286 doi:10.1186/1471-2164-7-286