Table 1

Studies identifying adult mammalian retina / RPE transcripts and details on gene data retrieval

Reference

Source / method a)

Species b)

Original dataset

No. of genes retrieved c) (non-redundant)

No. of genes identified in ≥ 2 studies


In-silico projects

[20]

Retina, TIGR (ID: version 3.3)

Hs

1,047

30

30

[19]

Retina, TIGR (ID: version 3.3)

Hs

1,315

11

11

[21]

Retina, UniGene (ID: build 118)

Hs

4,974

1,485

1,480

[22]

Retina, UniGene (ID: build 113)

Hs

6,190

46

45

[23]

Retina, EST (dbEST)

Hs

40,000

117

110

UniGene (Build 162) d)

Retina

Hs

3,560

1,612

1,211

UniGene (Build 162) d)

RPE

Hs

1,760

1,506

1,116

UniGene (Build 162) d)

Retina & RPE

Hs

11,976

9,178

9,178

cDNA library sequencing

[24]

Fovea, conventional

Hs

209

40

38

[25]

Retina, conventional

Hs

607

475

465

[37]

Retina & RPE, SSH

Hs

401

6

6

[30]

Retina, subtracted

Hs

137

49

48

[31]

Retina, PC and subtracted

Cf

173

66

65

[26]

RPE, primary and amplified, conventional

Hs

2,101

336

330

[38]

RPE, SSH

Bt

1,000

35

34

[27] and online e)

Retina, PC

Hs

2,701

2,096

2,059

[28] and online f)

RPE, PC

Hs

6,182

3,657

3,608

[29]

Retina, PC (ID: MRA)

Mm

1,793

421

412

[39]

Retina, SSH

Hs

1,080

310

301

[39]

RPE, SSH

Bt

2,350

343

329

Microarray Analysis

[32]

Retina, Affymetrix (ID: Mu11K subB)

Mm

6,540

67

67

[33]

Retina, custom array

Hs

10,034

530

508

Serial Analysis of Gene Expression

[34]

Retina, adult

Mm

54,009

4,233

3,974

[35]

Retina (ID: HMAC2)

Hs

102,359

7,269

6,919

[35]

Retina (ID: HPR1)

Hs

59,661

5,689

5,512

[35]

Retina (ID: HPR2)

Hs

105,312

7,268

6,955

[35]

RPE (ID: HRPE1)

Hs

53,666

5,755

5,211

Total (with inter-study redundancy)

52,630

50,022

Total (without redundancy)

15,645

13,037


a) TIGR: The Institute for Genomic Research; EST: expressed sequence tag; RPE: retinal pigment epithelium; SSH: suppression subtractive hybridization; PC: primary, conventional b) Hs: Homo sapiens; Mm: Mus musculus; Cf: Canis familiaris; Bt: Bos taurus c) Genes with LocusLink ID identified based on publically available information d) [67], For query terms see (see additional File 15 e) [68], March 2003 f) [69], March 2003

Schulz et al. BMC Genomics 2004 5:50   doi:10.1186/1471-2164-5-50

Open Data