Question

STRING does not support networks larger than 2000 nodes.

0

Entering edit mode

4.6 years ago

XBria ▴ 90

Hi,

A beginner question, I upload a file containing DEG to STRING-db. An error pops up as :

"We do not support networks larger than 2000 nodes. Please go back and reduce the number of proteins that you provide as input and specify the input organism. "

I need to keep the number of DEG unchanged. (2217 genes)

Please help me !

Thanks

Network string • 1.7k views

ADD COMMENT • link updated 4.5 years ago by Biostar 20 • written 4.6 years ago by XBria ▴ 90

1

Entering edit mode

Hi First the select the organism and try it. Further, the Interpretation of such dense network is biologically significant?, My suggestion increases the cut-off value of logFC and try again.

ADD REPLY • link 4.5 years ago by mathavanbioinfo ▴ 80

score 2 · Answer 1 · 2019-09-03

2

Entering edit mode

4.6 years ago

Prakash ★ 2.2k

Have you tried using StringApp in Cytoscape. That should work.

ADD COMMENT • link 4.6 years ago by Prakash ★ 2.2k

0

Entering edit mode

No, I have not, You mean for number of proteins more than 2000 we always need to use apps or package ?

ADD REPLY • link 4.6 years ago by XBria ▴ 90

1

Entering edit mode

Yes. Web servers do not have infinite resources so data upload is often limited to a certain size. Large data sets are best handled locally.