# CCLE\_mutations data mismatch

**URL:** <https://forum.depmap.org/t/ccle-mutations-data-mismatch/1436>\
**Category:** Report an Issue\
**Created:** [May 30, 2022, 4:43pm UTC](https://forum.depmap.org/t/ccle-mutations-data-mismatch/1436 "2022-05-30T16:43:51Z")\
**Posts on this page:** 4\
**Page:** 1

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**Author:** ![Saed\_Sayad](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/saed_sayad/32/124_2.png) [@Saed\_Sayad](https://forum.depmap.org/u/Saed_Sayad)\
**Post date:** [May 30, 2022, 4:43pm UTC](https://forum.depmap.org/t/ccle-mutations-data-mismatch/1436/1 "2022-05-30T16:43:51Z")

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The list of mutations for HOXC6 from the “CCLE\_mutations.csv” file (22Q2):

|Silent|25|  
|Missense\_Mutation|19|  
|Nonsense\_Mutation|2|  
|Frame\_Shift\_Ins|2|  
|Frame\_Shift\_Del|1|

This data does not match with the graph on the DepMap website.

Best,  
Saed

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**Author:** ![pmontgom](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/pmontgom/32/4_2.png) [@pmontgom](https://forum.depmap.org/u/pmontgom)\
**Post date:** [June 7, 2022, 6:53pm UTC](https://forum.depmap.org/t/ccle-mutations-data-mismatch/1436/2 "2022-06-07T18:53:47Z")

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Hello,

Thanks you for raising this issue. On first glance I think I see what you mean but I can’t think of any explanation for it. The number of Silent mutations is greater than what the histogram shows. I’m logging this as a bug for a developer to investigate.

Thank you,  
Phil

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**Author:** ![pmontgom](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/pmontgom/32/4_2.png) [@pmontgom](https://forum.depmap.org/u/pmontgom)\
**Post date:** [June 7, 2022, 7:04pm UTC](https://forum.depmap.org/t/ccle-mutations-data-mismatch/1436/3 "2022-06-07T19:04:29Z")

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This was so puzzling, I took a quick look and now I understand what’s going on.

The histogram is counting the number of cell lines for each variant, not actually the literal number of mutations. That is to say, if cell line X has 2 “Silent” mutations in gene Z, and cell line Y has 1 Silent mutation in gene Z, it would count that as “2 cell lines have silent mutations in gene Z”

This is reflected in the label on the x-axis which says “# of cell lines” and I had missed the first time I took a look at the plot.

As a result, I believe this is working as designed. (Although it’s debatable whether # of cell lines makes more sense to count, or # of mutations)

Thanks,  
Phil

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**Author:** ![Saed\_Sayad](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/saed_sayad/32/124_2.png) [@Saed\_Sayad](https://forum.depmap.org/u/Saed_Sayad)\
**Post date:** [June 7, 2022, 9:19pm UTC](https://forum.depmap.org/t/ccle-mutations-data-mismatch/1436/4 "2022-06-07T21:19:33Z")

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Thank you, Phil.  
Saed