# Reference WGS data of the cell line fusion gene

**URL:** <https://forum.depmap.org/t/reference-wgs-data-of-the-cell-line-fusion-gene/2694>\
**Category:** Q&A\
**Created:** [July 12, 2023, 6:03pm UTC](https://forum.depmap.org/t/reference-wgs-data-of-the-cell-line-fusion-gene/2694 "2023-07-12T18:03:41Z")\
**Posts on this page:** 3\
**Page:** 1

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**Author:** ![thfgf](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/thfgf/32/893_2.png) [@thfgf](https://forum.depmap.org/u/thfgf)\
**Post date:** [July 12, 2023, 6:03pm UTC](https://forum.depmap.org/t/reference-wgs-data-of-the-cell-line-fusion-gene/2694/1 "2023-07-12T18:03:41Z")

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Hello,  
I’m trying to figure out which reference genome sequence data the fusion gene breakpoints were based on.  
I tried to match the HL-60 cell line depmap fusion gene breakpoint data with the WGS data from ncbi at first, but I didn’t know which one to match with.

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**Author:** ![simz](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/simz/32/440_2.png) [@simz](https://forum.depmap.org/u/simz)\
**Post date:** [July 12, 2023, 6:15pm UTC](https://forum.depmap.org/t/reference-wgs-data-of-the-cell-line-fusion-gene/2694/2 "2023-07-12T18:15:07Z")

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Hi,

As of 23Q2, the reference genome used in STAR-Fusion is Hg38. The specific reference files that we input can be found in our public google storage bucket if that’s helpful: gs://ccleparams/references/GRCh38\_gencode\_v33\_CTAT\_lib\_Apr062020.plug-n-play/ctat\_genome\_lib\_build\_dir.

Best,  
Simone

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<div class="post-metadata">

**Author:** ![thfgf](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/thfgf/32/893_2.png) [@thfgf](https://forum.depmap.org/u/thfgf)\
**Post date:** [July 20, 2023, 12:53am UTC](https://forum.depmap.org/t/reference-wgs-data-of-the-cell-line-fusion-gene/2694/3 "2023-07-20T00:53:19Z")

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Hi.  
Thank you for your answer.  
I tried to access the storage bucket but I don’t have a billing account, so I wasn’t able to. I’m thinking that I could just try with the Hg83 genome reference data from the ncbi. Will there be a problem detecting the exact breakpoints of the fusion gene mensioned in the depmap cell line summary page from the ncbi reference by PCR?