Table 2

The thirty most highly expressed genes in macular RPE identified in six different human donors, sorted by intensity in descending order.

gene symbol

Genbank ID

mean intensity μint perc

CV perc

gene name

relevant function


KIAA0241

AA205569

99

98

KIAA0241


AI003379

AI003379

99

98

Transcribed locus


ACN9

NM_020186

99

98

ACN9 homolog

gluconeogenesis [25]


MT1A

BG191659

99

98

Metallothionein 1A

protection against reactive oxygen species[22]


SLC17A7

NM_020309

99

98

Solute carrier family 17 (sodium-dependent inorganic phosphate cotransporter), member 7

glutamate transporter, expressed in RPE[14,15]


TP53

NM_000546

99

98

Tumor protein p53

protection against reactive oxygen species[23]


ELF2

NM_006874

99

98

E74-like factor 2 (ets domain transcription factor)


AI272368

AI272368

99

95

cDNA clone


AA807363

AA807363

99

79

cDNA clone


SERPINB5

NM_002639

99

98

Serpin peptidase inhibitor, clade B, member 5


MCM7

NM_005916

99

97

minichromosome maintenance deficient 7


SLC1A2

NM_004171

99

96

Solute carrier family 1 member 2

glutamate transporter[1]


HBB

NM_000518

99

99

Hemoglobin, beta


PTGDS

NM_000954

99

94

Prostaglandin D2 synthase 21 kDa

released from RPE during rod phagocytosis [17,19]


T26536

T26536

99

75

cDNA clone


EEF1A1

NM_001402

99

80

Eukaryotic translation elongation factor 1 alpha 1


TTR

NM_000371

99

80

Transthyretin (prealbumin, amyloidosis type I)

maintains normal levels of retinol and retinol binding proteins in plasma [14,20]


BE260168

BE260168

99

90

cDNA clone


CST3

NM_000099

99

92

Cystatin C

associated with AMD[16,18]


ZNF503

NM_032772

99

95

Zinc finger protein 503


BG190000

BG190000

99

94

cDNA clone


BE262306

BE262306

99

80

cDNA clone


HSP90B1

NM_003299

99

94

Heat shock protein 90 kDa beta (Grp94), member 1

[21]


GNGT1

NM_021955

99

90

Guanine nucleotide binding protein (G protein), gamma transducing activity polypeptide 1


RPL3

NM_000967

99

20

Ribosomal protein L3


RPL41

NM_021104

99

23

Ribosomal protein L41


AI857840

AI857840

99

77

cDNA clone


PCSK7

NM_004716

99

90

Proprotein convertase subtilisin/kexin type 7


AL521537

AL521537

99

75

cDNA clone


CLU

NM_001831

99

42

Clusterin

member of complement system [24]


Among these genes we identified five genes with known expression in the RPE (SLC17A7[14], CST3[18], TTR[14], HSP90B1[21] and PTGDS[17]). The SLC17A7 gene is a glutamate transporter, like the SLC1A2 gene which is also in the top 30 highly expressed genes. The CST3 gene was previously suggested to have an association with AMD[16,17]. The list also contains two genes with a role in the protection against oxidative stress (MT1A[22], TP53[23]). The GNGT1 gene, expressed in photoreceptors[30], suggests the inevitable presence of photoreceptor contamination. Perc: percentile.

Booij et al. BMC Genomics 2009 10:164   doi:10.1186/1471-2164-10-164

Open Data