cbioportal for liquid biopsy data

[aghil hooshmand]

hello every one,

have anyon evere installed locally and used cbioportal for liquid biopsy data like CTC, ctDNA and EVs?

Many thanks

[de Bruijn, Ino]

Hi Aghil,

 

Thanks for reaching out!

 

We do indeed support ctDNA. You can find some studies when you search for cfDNA on the homepage. We also have a glioma study with liquid biopsies from cerebrospinal fluid. In liquid biopsies one often needs more sensitivity to pick up tumor DNA at low frequencies, so we have some built in functionality on the Patient View that can show you whether a mutation was called, not called but has supporting reads, or has 0 supporting reads. See for an example the patient in this study:

 

https://www.cbioportal.org/patient?studyId=glioma_msk_2018&caseId=IM-GBM-4

 

For studies where there are serial biopsies, we also provide the genomic evolution chart that can show how the allele frequency changes across each. You can see an example of that here:

 

https://www.cbioportal.org/patient/genomicEvolution?studyId=msk_access_2021&caseId=P-0004257#navCaseIds=msk_access_2021:P-0004257,msk_access_2021:P-0033799,msk_access_2021:P-0047181,msk_access_2021:P-0050020

 

 

Hope that helps!

 

Best wishes,

Ino

 

From: cbiop...@googlegroups.com <cbiop...@googlegroups.com> on behalf of aghil hooshmand <aghil.h...@gmail.com>
Date: Thursday, October 26, 2023 at 9:35 AM
To: cBioPortal for Cancer Genomics Discussion Group <cbiop...@googlegroups.com>
Subject: [EXTERNAL] [cbioportal] cbioportal for liquid biopsy data

hello every one, have anyon evere installed locally and used cbioportal for liquid biopsy data like CTC, ctDNA and EVs? Many thanks -- You received this message because you are subscribed to the Google Groups "cBioPortal for Cancer Genomics

hello every one,

have anyon evere installed locally and used cbioportal for liquid biopsy data like CTC, ctDNA and EVs?

Many thanks

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[de Bruijn, Ino]

My pleasure!

 

Best wishes,

Ino

 

From: aghil hooshmand <aghil.h...@gmail.com>
Date: Tuesday, April 16, 2024 at 6:04 AM
To: de Bruijn, Ino <debr...@mskcc.org>
Subject: [EXTERNAL] Private message regarding: [cbioportal] cbioportal for liquid biopsy data

Hi Ino, Many thanks for your helping, It was realy helpful On Friday 3 November 2023 at 12: 57: 21 UTC de Bruijn, Ino wrote: Hi Aghil,   Thanks for reaching out!   We do indeed support ctDNA. You can find some studies when you search for cfDNA

Hi Ino,

Many thanks for your helping, It was realy helpful