Repeated occurrence of a Gene Ontology term in WEGO output

Question

[Prakki Rama]

Hi, could anyone help me know why I see a GO term output more than once in the WEGO gene ontology output? Also, I do not understand why the terms like "cell part" are used.

Cellular Component:
36 (2.3) GO:0005576 extracellular region
**19 (1.2) GO:0044421 extracellular region part (more than once)**
**313 (19.8) GO:0005623 cell**
**313 (19.8) GO:0044464 cell part (more than once)**
2 (0.1) GO:0031974 membrane-enclosed lumen
12 (0.8) GO:0031975 envelope
34 (2.2) GO:0032991 macromolecular complex
63 (4.0) GO:0043226 organelle
31 (2.0) GO:0044422 organelle part
**19 (1.2) GO:0044421 extracellular region part (more than once)**
31 (2.0) GO:0044422 organelle part 
**313 (19.8) GO:0044464 cell part (more than once)**
------------------------------------
  Total: 12

With little research, I came across the following statement in page about the "cell part" GO:

Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.

[Jean-Karim Heriche]

I am not familiar with WEGO but as I understand how it works, it's only a visualization tool that represents what you give it as input. So if you didn't take care of the redundancy induced by the structure of the Gene Ontology then you'll see it in the output. I think in WEGO you're supposed to select the terms you want displayed. From the homepage:

...you will be redirected to a webpage with hierarchical GO tree in which all the GO terms contained in the files uploaded are included. You could choose any GO terms interested at this page to display in the output histogram.

Depending on your needs you could try a tool like REVIGO or perform a term enrichment analysis first.