Micro serial analysis of gene expression in normal human choroid and retinal pigment epithelial transcriptomes.
OBJECTIVE
To investigate the gene expression profile of the normal human choroid/retinal pigment epithelium(RPE) tissues.


METHODS
Micro serial analysis of gene expression (Micro SAGE) was performed. A SAGE library was constructed from 110 microg of total RNA of normal human choroid/RPE tissue, and cloned tag concatemers transformed to E.coli were sequenced. The sequence data were analyzed by SAGE software and matched to GenBank and UniGene public databases. The sequence data were also compared with the choroid/RPE cDNA library of NEIBank.


RESULTS
A total of 12 070 tags were sequenced; 3627 tags were unique. Of these 3627 tags, 2508 tags were encoded genes and 1119 tags were unknown tags in the UniGene database. The most frequently expressed tag was TCCCTATTAA, but the gene corresponding to this tag has not been identified yet. Other frequently expressed tags encoded a tissue inhibitor of matrix metalloproteinase 3, insulin-like growth factor binding protein-related protein 1, and transthyretin. These genes are notably different, with high expression frequencies when compared to the cDNA library of NEIBank.


CONCLUSIONS
This gene expression profile of the normal human choroid/RPE tissue should provide further understanding of the biological function of the choroid and the pathogenesis of diseases in which the choroid and RPE play a role, such as choroidal neovascularization.
Kobashi-Hashida
Michiyo
M
Department of Biomaterial Science, Graduate School of Dentistry, Osaka University, Osaka, Japan.
Ohguro
Nobuyuki
N
Tsujikawa
Motokazu
M
Furukawa
Takahisa
T
Furukawa
Akiko
A
Hashida
Noriyasu
N
Tsujikawa
Kaoru
K
Nakai
Kei
K
Tano
Yasuo
Y
D000368:Aged; D002829:Choroid / Q000378:metabolism*; D030541:Databases, Genetic; D020224:Expressed Sequence Tags / Q000378:metabolism*; D005136:Eye Proteins / Q000235:genetics / Q000378:metabolism; D019084:Fluorescent Antibody Technique, Indirect; D020869:Gene Expression Profiling / Q000379:methods*; D005786:Gene Expression Regulation; D015723:Gene Library; D006801:Humans; D008297:Male; D010857:Pigment Epithelium of Eye / Q000378:metabolism*; D012313:RNA / Q000302:isolation & purification; D014158:Transcription, Genetic
D005136:Eye Proteins; D012313:RNA