
Cell Illustrator
Gene Net Mode
Reference Manual
© 2002-2007 GNI Ltd.
All rights reserved.
Table of
contents:
1 Introduction.. 4
2 Glossary.. 5
3 Gene
Net Mode.. 6
3.1 Switching
to the Gene Net Mode. 6
3.2 Differences
between Gene Net and Biopathway Modeling Modes. 7
3.3 Documentation
for Biopathway Modeling Mode. 8
4 Workspace
in the Gene Net Mode.. 9
4.1 Menu
Bar Commands. 10
4.2 CI
Toolbars. 41
5 Drawing
Canvas.. 45
5.1 Canvas
Popup Menus. 45
6 Element
Lists.. 47
7 Element
Settings.. 49
7.1 Model
and Canvas Property Sheet. 49
7.2 Gene
Property Sheets. 49
7.3 Edge
Property Sheets. 50
8 Preferences.. 52
9 Graph
Layout.. 53
9.1 Graph
Layout Algorithms. 54
10 Keyword
Search.. 55
11 Pathway
Search.. 57
11.1 Search
From Combo Box. 57
11.2 Search
to Combo Box. 58
11.3 Show
Probe ID.. 58
11.4 Number
of Edges. 58
11.5 Direction
Combo Box. 58
11.6 Passing
Genes. 58
11.7 Add
Results to Current Subnet 58
11.8 Execute
Button. 59
12 Pathway
Search Results.. 60
13 Subnets.. 61
14 Gene
List Search.. 63
15 Expression
Plot.. 65
16 Partial
Residual Plot.. 66
17 Gene
Mining.. 67
17.1 Gene
List 68
17.2 Gene
Info. 68
17.3 Gene
Pubmed. 68
17.4 Link
Summary. 68
17.5 PubMed
Links. 69
17.6 KEGG
Link. 69
17.7 MIM
Links Panel 69
17.8 Refresh
Button. 69
18 Print
Model.. 70
19 External
References.. 71
20 Add/Edit
References.. 72
21 Save
Dialog.. 73
22 About
Cell Illustrator.. 74