enriched genes PPI network
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11 months ago
yueli7 ▴ 250

Hello,

I want to make a figure just like below Figure 1. I went to string database and made a search: https://string-db.org/cgi/input?sessionId=bHX2BS9VeUGo&input_page_show_search=on. The result just like Figure 2.

I can not find the genes: SEC24C, sec24D, SEC23A, SEC24A....

How can I make Figure 1?

Thank you in advance for any help!

Best,

Yue

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11 months ago
Mensur Dlakic ★ 26k

It doesn't work like that. Wherever you obtained Figure 1, it is obvious that it wasn't done by STRING, as its style and format are completely different. If I were to guess, what's in Figure 1 appears to be old results that were plotted manually. I would not expect that STRING will reproduce the results that were done a long time ago or with a different set of interactions. Instead, I suggest you stick with the current plot, as it is more likely to be reliable. For example, when I start a search with SEC24C on STRING, it includes all the proteins you want, but that network doesn't seem to be connected with TMED2.

enter image description here

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Hello Mensur,

Thank you so much for your help!

Best,

Yue

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