Question: STRING database threshold value
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gravatar for sharmatina189059
9 months ago by
United States
sharmatina18905930 wrote:

Dear all I have some protein sequences and I want to get Protein-protein interaction using STRING database. From string API, I have downloaded all the COG.links.detailed.v10.5.txt.gz (209.2 Mb) which contains all the scores. But I have those having medium score threshold only. Is there any option to do that or any script. I have interactions like this.

575584.HMPREF0010_00003 575584.HMPREF0010_00012 168 0   0   0   0   0   0   168
575584.HMPREF0010_00003 575584.HMPREF0010_00004 640 0   0   0   0   0   0   640
575584.HMPREF0010_00003 575584.HMPREF0010_00013 168 0   0   0   0   0   0   168
575584.HMPREF0010_00003 575584.HMPREF0010_00010 180 0   0   0   0   0   0   180
575584.HMPREF0010_00003 575584.HMPREF0010_00006 477 0   0   0   0   0   0   477
575584.HMPREF0010_00003 575584.HMPREF0010_00009 180 0   0   0   0   0   0   180
575584.HMPREF0010_00003 575584.HMPREF0010_00005 477 0   0   0   0   0   0   477
575584.HMPREF0010_00003 575584.HMPREF0010_00011 168 0   0   0   0   0   0   168
575584.HMPREF0010_00003 575584.HMPREF0010_00007 285 0   0   0   0   0   0   285
575584.HMPREF0010_00003 575584.HMPREF0010_00008 200 0   0   0   0   0   0   200

I want to retrive only medium threshold values.

string database genome • 323 views
ADD COMMENTlink modified 6 months ago by Biostar ♦♦ 20 • written 9 months ago by sharmatina18905930

How the medium threshold values relate to the table you downloaded?

ADD REPLYlink written 9 months ago by h.mon21k

The last column is the combined score values and I wanted to get all the interacting partners having medium threshold using STRING database.

ADD REPLYlink written 9 months ago by sharmatina18905930
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