Help for cBioPortal

[Michael Lisby]

Dear cBioportal,

I am in the process over revising a manuscript, where one of the reviewers ask:

By C-bioportal, are there HR-deficient tumors with germline or acquired mutations in the ZGRF1- or RAD54B genes and perhaps in the DUF domain?

To answer the question by the reviewer, I have followed the webinars on the cBioportal website, but I am still not entirely sure how to best answer the reviewer. Is there a way to identify HR (homologous recombination)-deficient tumors in cBioportal besides looking at co-occurance of mutations in ZGRF1- or RAD54B with mutations in known HR genes such as BRCA2?

Any help or advice would be much appreciated.

Kind regards,

Michael

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Michael Lisby, Prof., Ph.D.
Copenhagen Biocenter, room 4-1-07
Department of Biology
University of Copenhagen
Ole Maaløes Vej 5
DK-2200 Copenhagen N
Denmark
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E-mail: mli...@bio.ku.dk
Ph: + 45 3532 2120
X: @lisby_michael
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[JJ Gao]

Hi Michael,

Sorry for the late reply. HRD data is sparse in cBioPortal. One option is to look at patients with mutated HRD-associated genes, for example, in this link (https://bit.ly/4um1o1d).

We have some HRD data in the xenograph study: https://www.cbioportal.org/study/summary?id=pancan_pdmr_2025. Not certain if that's what you are looking for through.

Best,

-JJ

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