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cBioPortal for Cancer Genomics Discussion Group

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Andi L., Benjamin Gross2

Mar 20

MSK-CHORD overall survival

Hi Andi, I can see the confusion. The definition of OS_MONTHS in the cBioPortal documentation is

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MSK-CHORD overall survival

Hi Andi, I can see the confusion. The definition of OS_MONTHS in the cBioPortal documentation is

Mar 20

Ali Livernois, Benjamin Gross3

Mar 20

KRAS mut/WT patient ID disconnect between portal/paper

Thank you very much, Benjamin! Best, Alexandra From: Benjamin Gross <benjami...@gmail.com>

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KRAS mut/WT patient ID disconnect between portal/paper

Thank you very much, Benjamin! Best, Alexandra From: Benjamin Gross <benjami...@gmail.com>

Mar 20

Miu ki Yip, Benjamin Gross4

Mar 19

Private Instance Data Access Token Generation UUID

Hi Yip, The uuid mechanism was an implementation that existed before Keycloak was integrated into the

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Private Instance Data Access Token Generation UUID

Hi Yip, The uuid mechanism was an implementation that existed before Keycloak was integrated into the

Mar 19

Turski, Michelle, … korjc...@gmail.com6

Mar 18

Request for VPAT for cBioPortal

I wanted to check in to see if there have been any updates from the cBioPortal team on this, and to

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Request for VPAT for cBioPortal

I wanted to check in to see if there have been any updates from the cBioPortal team on this, and to

Mar 18

Zain Ali Khan, Prasanna Jagannathan3

Mar 18

Re: GSoC 2026 — cBioPortal Slack Invitation Request | Zain Ali Khan

Thank you, I will do that. and i am send the request On Wed, Mar 18, 2026 at 9:24 PM Prasanna

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Re: GSoC 2026 — cBioPortal Slack Invitation Request | Zain Ali Khan

Thank you, I will do that. and i am send the request On Wed, Mar 18, 2026 at 9:24 PM Prasanna

Mar 18

Zain Ali Khan, Prasanna Jagannathan2

Mar 17

GSoC 2026: Interest in contributing to cBioPortal | Full-Stack & AI Background | Zain Ali Khan

Hi Zain, Please follow Google Summer of Code program. Once the applicants are open, then you can

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GSoC 2026: Interest in contributing to cBioPortal | Full-Stack & AI Background | Zain Ali Khan

Hi Zain, Please follow Google Summer of Code program. Once the applicants are open, then you can

Mar 17

Michael Johnson, Prasanna Jagannathan2

Mar 17

cBioDBAgent access

Hi Michael This work is in the prototype stage. You can give it a shot on https://chat.cbioportal.org

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cBioDBAgent access

Hi Michael This work is in the prototype stage. You can give it a shot on https://chat.cbioportal.org

Mar 17

prasanth yenduri, … Prasanna Jagannathan4

Mar 17

Regarding cbio chat interface

Hi Prasanth The clickhouse RFC 100 is going to be released soon by end of March. This provides

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Regarding cbio chat interface

Hi Prasanth The clickhouse RFC 100 is going to be released soon by end of March. This provides

Mar 17

SKINNER, Hollie (KING'S COLLEGE HOSPITAL NHS FOUNDATION TRUST), … Xiang Li3

Mar 16

Transcript error for CIC

Hi Hollie, Thanks for pointing this out. The mutation data is annotated using Ensembl transcripts. We

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Transcript error for CIC

Hi Hollie, Thanks for pointing this out. The mutation data is annotated using Ensembl transcripts. We

Mar 16

Tim Somervaille, Gaofei Zhao4

Mar 16

TARGET_GDC AML dataset

Hi Gaofei, Sorry to pester you, but I wonder whether you had had a chance to look at this? Thanks so

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TARGET_GDC AML dataset

Hi Gaofei, Sorry to pester you, but I wonder whether you had had a chance to look at this? Thanks so

Mar 16

Chen, Joyce, Guizela Huelsz Prince4

Mar 16

Hi Joyce, 1. Thanks for the clarification, I see how this can be tricky. A workaround is to re-define

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Hi Joyce, 1. Thanks for the clarification, I see how this can be tricky. A workaround is to re-define

Mar 16

Enkemann, Steven, Prasanna Jagannathan2

Mar 13

Unable to query the GENIE dataset.

Hi Steven Thanks for reporting the error. We will take a look into this. Please reply only to

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Unable to query the GENIE dataset.

Hi Steven Thanks for reporting the error. We will take a look into this. Please reply only to

Mar 13

Jason White, Gaofei Zhao3

Mar 10

Connection to public API yields limited study availability

Hi Gaofei, The links you provided seemed to help with the issue, I can now see 530 studies through

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Connection to public API yields limited study availability

Hi Gaofei, The links you provided seemed to help with the issue, I can now see 530 studies through

Mar 10

John Francis, de Bruijn, Ino5

Mar 10

Searching for a specific Mutation Type

Can anyone answer my question above regarding API? Thank you, John On Wednesday, March 4, 2026 at 2:

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Searching for a specific Mutation Type

Can anyone answer my question above regarding API? Thank you, John On Wednesday, March 4, 2026 at 2:

Mar 10

Chen, Hui-Zi, Curation Team2

Mar 9

Question re: cell line data

Hi Huizi Chen, Thanks for reaching out. Because the DepMap portal is dynamic, we rely on the data

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Question re: cell line data

Hi Huizi Chen, Thanks for reaching out. Because the DepMap portal is dynamic, we rely on the data

Mar 9

Leila Kamkar, … Gaofei Zhao10

Mar 9

Study Import in cBioPortal with redis and keycloak

Hi Gaofei, Thank you for your help. It is working now. Best, Leila On Thursday, March 5, 2026 at 7:33

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Study Import in cBioPortal with redis and keycloak

Hi Gaofei, Thank you for your help. It is working now. Best, Leila On Thursday, March 5, 2026 at 7:33

Mar 9

Mar 9

What is the data source and calling procedure for copy number data in ccle_broad_2019?

I'm trying to understand the source and processing of the discrete copy number alteration data in

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What is the data source and calling procedure for copy number data in ccle_broad_2019?

I'm trying to understand the source and processing of the discrete copy number alteration data in

Mar 9

Pritam Kumar Ghosh, … 高橋美湖13

Mar 9

cBioPortal user reported error

https://www.cbioportal.org/results/oncoprint?cancer_study_list=acyc_fmi_2014%2Cacyc_jhu_2016%

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cBioPortal user reported error

https://www.cbioportal.org/results/oncoprint?cancer_study_list=acyc_fmi_2014%2Cacyc_jhu_2016%

Mar 9

Buzdugan, Bogdan

Mar 9

Request for Access to cBioPortal AI Chat Interface

Hello! I hope this message finds you well. My name is Bogdan, and I am a graduate research fellow at

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Request for Access to cBioPortal AI Chat Interface

Hello! I hope this message finds you well. My name is Bogdan, and I am a graduate research fellow at

Mar 9

Mar 4

{"type":"ErrorBoundary","log":"NotFoundError: Failed to execute

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{"type":"ErrorBoundary","log":"NotFoundError: Failed to execute

Mar 4

Alkaissi, Hussam (NIH/NIDDK) [E], … Anu Vijay14

Feb 27

TCGA-PCPG Cohort

The germline variant data has already been captured and added as a clinical attribute in the Summary

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TCGA-PCPG Cohort

The germline variant data has already been captured and added as a clinical attribute in the Summary

Feb 27

Enkemann, Steven, Gaofei Zhao2

Feb 26

Hi Steven, I tried querying the GENIE cohort (v19.0) for PTEN, and it looks correct on my end. Could

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Hi Steven, I tried querying the GENIE cohort (v19.0) for PTEN, and it looks correct on my end. Could

Feb 26

Miu ki Yip, Jessica Singh2

Feb 25

Studies Structural Variant Chart Title Wording

Hi Miu ki, The denominator shown in that chart is driven by the gene panel matrix file. If that file

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Studies Structural Variant Chart Title Wording

Hi Miu ki, The denominator shown in that chart is driven by the gene panel matrix file. If that file

Feb 25

elias, Tim Kuijpers3

Feb 25

Reference Genome

Dear Elias, For some reason your second question did not end up in the board (and only in my inbox).

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Reference Genome

Dear Elias, For some reason your second question did not end up in the board (and only in my inbox).

Feb 25

Heather Costello, Jessica Singh2

Feb 25

fields populated by source data vs populated by cbp efforts

Hi Heather, Thanks for reaching out. This is a great question, especially given that you are building

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fields populated by source data vs populated by cbp efforts

Hi Heather, Thanks for reaching out. This is a great question, especially given that you are building

Feb 25

Mihir Shah, Jessica Singh2

Feb 25

Access to the CBioPortal AI-powered chat

Hi Mihir, Thanks for your message, and it's great to hear you're using cBioPortal for your

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Access to the CBioPortal AI-powered chat

Hi Mihir, Thanks for your message, and it's great to hear you're using cBioPortal for your

Feb 25

Sushma Sushma, Jessica Singh2

Feb 25

Request for Approval / Acknowledgment for Academic Use of TCGA Database in Breast Cancer Genomic Research

Hi Dr. Sushma, Thank you for your detailed message and for outlining your study so clearly. No formal

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Request for Approval / Acknowledgment for Academic Use of TCGA Database in Breast Cancer Genomic Research

Hi Dr. Sushma, Thank you for your detailed message and for outlining your study so clearly. No formal

Feb 25

Prasanth Yenduri, Tim Kuijpers2

Feb 25

Incremental Load Support for CNA DISCRETE_LONG Datatype

Dear Prasanth, The CNA_DISCRETE_LONG datatype has been added and is available to the cbioportal-core

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Incremental Load Support for CNA DISCRETE_LONG Datatype

Dear Prasanth, The CNA_DISCRETE_LONG datatype has been added and is available to the cbioportal-core

Feb 25

Franz Ketzer, … Aaron L8

Feb 20

mRNA profile not available

Hi, Thank you, it seems to be working now! Appreciate your help. Best, Franz Von: Aaron L <lisman.

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mRNA profile not available

Hi, Thank you, it seems to be working now! Appreciate your help. Best, Franz Von: Aaron L <lisman.

Feb 20

Bozhi Liu, ole...@thehyve.nl3

Feb 20

Dear Bozhi, You can access the chat in https://chat.cbioportal.org. Best regards, Oleguer Plantalech

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Dear Bozhi, You can access the chat in https://chat.cbioportal.org. Best regards, Oleguer Plantalech

Feb 20

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