Find GO categories shared by pairs of genes

Count and/or display shared GO categories for pairs of genes

(This software is under development.)

This form lets users count or find GO annotations that are shared by

all pair-wise combinations of a set of genes, or
a set of gene pairs input by the user.

When a set of genes is submitted, a set of gene pairs will be built from members of the input set, and both permutations of the pair will be included.

Which GO namespace (aka "ontology") do you want to work with?
Cellular_component Biological_process Molecular_function

In the textarea below please enter a:

newline-separated list of pipe-separated gene GID|name pairs (e.g., "2|A2M")
newline-separated list of pipe-separated gene GID_1|name_1|gene GID_2|name_2 quads
(e.g., "2|A2M|348|APOE")

Which pairs do you want to display?

All
Only pairs sharing NO categories
Only pairs sharing at least one category

Do you want to have shared GO category IDs displayed?
No Yes

Do you want to have shared GO category IDs AND their category names displayed?
No Yes

Do you want to display GO category IDs AND their category names if niether gene has zero annotations, but they share zero annotations?
No Yes

What is the maximum number of GO entries to list for a single pair?

Do you want to consider all child categories of any annotated category?
(This can produce copious output if you are listing shared category names.) No Yes

Here is an example set of genes related to Alzheimer's Disease:

2|A2M
1636|ACE
323|APBB2
348|APOE
351|APP
642|BLMH
4353|MPO
4846|NOS3
22976|PAXIP1
5328|PLAU
5663|PSEN1
5664|PSEN2

and here is an example set of edges:

2|A2M|1636|ACE
323|APBB2|348|APOE
351|APP|642|BLMH
4353|MPO|4846|NOS3
22976|PAXIP1|5328|PLAU
5663|PSEN1|5664|PSEN2
1499|CTNB1|1600|DAB1

This software is under development. Please report problems and direct inquiries to Michael Grobe of the Biomedical Applications group within UITS at Indiana Unversity via dgrobe @ iupui.edu.