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Table 1 Summary of the annotation categories and types in the GARNET system

From: GARNET – gene set analysis with exploration of annotation relations

Category

Annotation DB

Number of Annotations

Number of Unique Genes

Version

Update Date

Molecular Network

KEGG

199

5193

Release 54.0+/

2010.05.10

 

BioCarta

314

1383

 

2010.04.06

 

Protein-Protein Interactions (PPI)

5829

7631

NCBI integrated DB

2010.05.17

 

miRBase

711

34525

5.0

2009.09.29

 

TarBase

106

394

V5

2008.06

 

TargetScan

162

7930

4.2

 
 

PicTar-4way

178

9152

hg17, Build 35

 
 

PicTar-5way

130

3455

hg17, Build 35

 

Genome Annotation

Gene Ontology (GO)

30479

18242

 

2010.05.20

 

Pfam domains

3922

16409

24.0

2009.10.07

 

Chromosomal Bands

3078

32920

 

2010.05.23

Gene Expression

Tissue EST

51

13367

 

2010.04.06

 

Tissue SAGE

32

8528

 

2010.04.06

 

Tissue Microarray

32

10769

  
 

Cancer Microarray

25

13619

  

Disease & Drug

OMIM

1063

2683

 

2008.08.27

 

GAD

1212

2872

 

2008.12.26

 

DrugBank

591

259

  

Total

 

57973

32920