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cBioPortal for Cancer Genomics Discussion Group

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10:56 AM

Overlapping Data not flagged in Medulloblastoma Studies

Hi, I hope you are doing well. I encountered an issue while using data from the medulloblastoma

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Overlapping Data not flagged in Medulloblastoma Studies

Hi, I hope you are doing well. I encountered an issue while using data from the medulloblastoma

10:56 AM

Laura Parrilla Monge, Aaron L4

10:55 AM

Create a group by selecting patients by ID

Hi Laura, is it possible you didnt select the "By patient ID" radio button (see screenshot)

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Create a group by selecting patients by ID

Hi Laura, is it possible you didnt select the "By patient ID" radio button (see screenshot)

10:55 AM

Ricardo Tiecher, Aaron L3

Jan 3

Batch download of patient timeline data

Thanks for you answer, Aaron! It worked perfectly. Happy 2026! Em segunda-feira, 29 de dezembro de

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Batch download of patient timeline data

Thanks for you answer, Aaron! It worked perfectly. Happy 2026! Em segunda-feira, 29 de dezembro de

Jan 3

Nives Pećina-Šlaus, … Nikolaus Schultz3

12/30/25

question on data

Hi Nives, You can also download data directly from our Data Hub at: https://github.com/cBioPortal/

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question on data

Hi Nives, You can also download data directly from our Data Hub at: https://github.com/cBioPortal/

12/30/25

Jitender Singh, Tim Kuijpers2

12/30/25

Clarification on Data Source and Citation for TARGET Datasets Used from cBioPortal

Dear Jitender, Please have a look at the following website: GDC - Using TARGET data. There is a

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Clarification on Data Source and Citation for TARGET Datasets Used from cBioPortal

Dear Jitender, Please have a look at the following website: GDC - Using TARGET data. There is a

12/30/25

Shayna Simonstein, Tali Mazor3

12/23/25

Cross TCGA Pan Cancer Atlas study expression analysis in private cBioPortal

Thanks, Tali!! On Friday, December 19, 2025 at 4:47:43 PM UTC-5 Tali Mazor wrote: Hi Shayna, By

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Cross TCGA Pan Cancer Atlas study expression analysis in private cBioPortal

Thanks, Tali!! On Friday, December 19, 2025 at 4:47:43 PM UTC-5 Tali Mazor wrote: Hi Shayna, By

12/23/25

Nergz Seerwan, Aaron L2

12/22/25

cBioPortal user reported error

Thanks Nergz, Could you send me the url where you are seeing the problem? Are you logged in by the

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cBioPortal user reported error

Thanks Nergz, Could you send me the url where you are seeing the problem? Are you logged in by the

12/22/25

John, … Gaofei Zhao9

12/22/25

Tissue Sample Image files for local cbio instance (?)

Hi JJ, Thank you very much.....You have been very helpful. Regards, John Francis On Friday, December

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Tissue Sample Image files for local cbio instance (?)

Hi JJ, Thank you very much.....You have been very helpful. Regards, John Francis On Friday, December

12/22/25

Alireza Samiei, … Jeffrey Tsao12

12/18/25

? regarding SV feature on cBioportal

Thanks all for confirming. Jeff On Thu, Dec 18, 2025 at 9:03 AM Popoola, Jumi <jumi.popoola@aacr.

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? regarding SV feature on cBioportal

Thanks all for confirming. Jeff On Thu, Dec 18, 2025 at 9:03 AM Popoola, Jumi <jumi.popoola@aacr.

12/18/25

Sreekumar, Nitin, Gaofei Zhao2

12/15/25

cBioportal API issue

Hi Nitin, Thank you for reporting this issue. I have filed a ticket for it here. We will look into

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cBioportal API issue

Hi Nitin, Thank you for reporting this issue. I have filed a ticket for it here. We will look into

12/15/25

Ahsen Tahir, Gaofei Zhao2

12/15/25

Inquiry Regarding Availability of cBioPortal API Tokens

Hi Ahsen, Thanks for reaching out. API tokens are still supported on authorized cBioPortal instances.

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Inquiry Regarding Availability of cBioPortal API Tokens

Hi Ahsen, Thanks for reaching out. API tokens are still supported on authorized cBioPortal instances.

12/15/25

Jun mei Hu Frisk, JJ Gao2

12/15/25

a question about figure on "Survival" based on mRNA expression

Hi Jun Mei, Thanks for reaching out to me. Both use the Kaplan–Meier method, a standard way to plot

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a question about figure on "Survival" based on mRNA expression

Hi Jun Mei, Thanks for reaching out to me. Both use the Kaplan–Meier method, a standard way to plot

12/15/25

Carlos Espinosa, … Sachin Kumar3

12/13/25

Unable to deploy version 5 of cbioportal

I can help if you need On Thu, Dec 11, 2025 at 9:56 AM Gaofei Zhao <zhaoga...@gmail.com>

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Unable to deploy version 5 of cbioportal

I can help if you need On Thu, Dec 11, 2025 at 9:56 AM Gaofei Zhao <zhaoga...@gmail.com>

12/13/25

Aaron Gmail, de Bruijn, Ino2

12/11/25

Thanks for reaching out, Aaron! Appreciate your offer to help test the chat agent! The chat interface

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Thanks for reaching out, Aaron! Appreciate your offer to help test the chat agent! The chat interface

12/11/25

Leal, Alessandro, Benjamin Gross9

12/11/25

Issue Accessing GENIE API With Data Access Token (Redirects to Google Login)

Ok great, thank you! -B On Dec 11, 2025, at 2:41 PM, Leal, Alessandro <Alessandro.Leal@nyulangone.

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Issue Accessing GENIE API With Data Access Token (Redirects to Google Login)

Ok great, thank you! -B On Dec 11, 2025, at 2:41 PM, Leal, Alessandro <Alessandro.Leal@nyulangone.

12/11/25

Dr. Pushpita Roy, Nikolaus Schultz3

12/10/25

For Suggestions

Dear Niki, Thank you so much for your reply. I really appreciate! Best Regards, DR. Pushpita Roy MBBS

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For Suggestions

Dear Niki, Thank you so much for your reply. I really appreciate! Best Regards, DR. Pushpita Roy MBBS

12/10/25

Patrice Naud (CIUSSS EMTL), de Bruijn, Ino2

12/10/25

Requesting Access to Test cBioPortal AI Chat Interface Prototype

Hi Patrice, Thanks so much for reaching out! This work is in prototype stage, so keep expectations

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Requesting Access to Test cBioPortal AI Chat Interface Prototype

Hi Patrice, Thanks so much for reaching out! This work is in prototype stage, so keep expectations

12/10/25

Brett Gaspers, de Bruijn, Ino2

12/10/25

Chat interface access

Hi Brett, Thanks so much for reaching out! This work is in prototype stage, so keep expectations low

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Chat interface access

Hi Brett, Thanks so much for reaching out! This work is in prototype stage, so keep expectations low

12/10/25

Federico Colombo, Nikolaus Schultz2

12/10/25

DEFINITION OF MUTATION TYPE

Hi Federico, This seems to be basic molecular biology question. I found this glossary about the

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DEFINITION OF MUTATION TYPE

Hi Federico, This seems to be basic molecular biology question. I found this glossary about the

12/10/25

Alkaissi, Hussam (NIH/NIDDK) [E], … Nikolaus Schultz7

12/9/25

TCGA-PCPG Cohort

Hi Niki, I thought of that as well, and already made this list of available info. Let me know what

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TCGA-PCPG Cohort

Hi Niki, I thought of that as well, and already made this list of available info. Let me know what

12/9/25

Matthew Witek, Nikolaus Schultz2

12/9/25

Re: help with download

Hi Matthew, Unfortunately, that is not possible at the moment and is not a planned feature. I suggest

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Re: help with download

Hi Matthew, Unfortunately, that is not possible at the moment and is not a planned feature. I suggest

12/9/25

Sadie Dresman (Cardiff and Vale UHB - Awmgs), Aaron L2

12/9/25

cBioPortal user reported error

Hi Sadie, Thanks for this report. Looks like there may have been a temporary problem with our server.

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cBioPortal user reported error

Hi Sadie, Thanks for this report. Looks like there may have been a temporary problem with our server.

12/9/25

刘英, Aaron L2

12/9/25

THanks for this report. We were unable to reproduce the problem. Can you try again? --Aaron On Tue,

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THanks for this report. We were unable to reproduce the problem. Can you try again? --Aaron On Tue,

12/9/25

12/9/25

Organization Invitation - Winter of Code 5.0

Dear Team, I hope you are doing well. I am reaching out on behalf of the organising team of Winter of

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Organization Invitation - Winter of Code 5.0

Dear Team, I hope you are doing well. I am reaching out on behalf of the organising team of Winter of

12/9/25

Turski, Michelle, Benjamin Gross5

12/5/25

Request for VPAT for cBioPortal

Thanks Benjamin, FWIW, the ruling applies to "state and local government web applications"

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Request for VPAT for cBioPortal

Thanks Benjamin, FWIW, the ruling applies to "state and local government web applications"

12/5/25

Damrauer, Jeffrey, Benjamin Gross2

12/3/25

Error for bladder_msk_2025

Hi Jeff, Thanks for the email. Our curation team will be releasing this study soon. I've cc'd

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Error for bladder_msk_2025

Hi Jeff, Thanks for the email. Our curation team will be releasing this study soon. I've cc'd

12/3/25

Chen Jingxian, Benjamin Gross2

12/3/25

cbioportal AI interface

Hi Nova, Your email is timely. The cBioPortal team is in the final stages of approving an RFC to

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cbioportal AI interface

Hi Nova, Your email is timely. The cBioPortal team is in the final stages of approving an RFC to

12/3/25

Isabel.Misir, Prasanna Jagannathan2

12/2/25

Hi Izzy Based on my understanding of the article, the unit of measurement is FPKM. Link to PDF is

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Hi Izzy Based on my understanding of the article, the unit of measurement is FPKM. Link to PDF is

12/2/25

Costello, Heather, Ritika Kundra2

11/26/25

Pptc link heads-up

Hi Heather, Thanks for notifying us. The link has been updated. Ritika On Mon, Nov 24, 2025 at 4:07

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Pptc link heads-up

Hi Heather, Thanks for notifying us. The link has been updated. Ritika On Mon, Nov 24, 2025 at 4:07

11/26/25

Elena Karydi, … Guckin, Danielle14

11/26/25

cBioPortal user reported error

Hi, I don't see that as an option (the website looks different for me). I am selecting a specific

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cBioPortal user reported error

Hi, I don't see that as an option (the website looks different for me). I am selecting a specific

11/26/25

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