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cBioPortal for Cancer Genomics Discussion Group

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Pritam Kumar Ghosh

1:43 AM

BCGA is not working properly

Hi, If I had made two groups in BCGA, I couldn't compare them. I have tried many times. Every

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BCGA is not working properly

Hi, If I had made two groups in BCGA, I couldn't compare them. I have tried many times. Every

1:43 AM

Soumya Joshi, Nikolaus Schultz4

Apr 1

Re: Studying Phosphorylation Levels

Thanks for the information. Do you know of any dataset or database that I can use to study LATS

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Re: Studying Phosphorylation Levels

Thanks for the information. Do you know of any dataset or database that I can use to study LATS

Apr 1

Steve Neuhauser, de Bruijn, Ino2

Apr 1

Organization of studies into groups on query / home page

HI Steve, Thanks for reaching out! This is currently managed through application configuration: https

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Organization of studies into groups on query / home page

HI Steve, Thanks for reaching out! This is currently managed through application configuration: https

Apr 1

Jill Bigler, … Nikolaus Schultz5

Mar 31

cBioPortal user reported error

Thanks. It seems to work for me - see this query for PIK3CA: https://bit.ly/3O9jkgm Can you confirm

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cBioPortal user reported error

Thanks. It seems to work for me - see this query for PIK3CA: https://bit.ly/3O9jkgm Can you confirm

Mar 31

Jerome Koopman, Nikolaus Schultz2

Mar 31

Breast Cancer studies with PIK3CA mutation

Hi, You can query all breast cancer studies for PIK3CA and see the frequency of PIK3CA mutations in

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Breast Cancer studies with PIK3CA mutation

Hi, You can query all breast cancer studies for PIK3CA and see the frequency of PIK3CA mutations in

Mar 31

Ines Boga, Nikolaus Schultz2

Mar 31

Enquiry regarding survival data: Acute Myeloid Leukemia Firehose Legacy dataset

Hi Ines, This is a good question - we would not use a “0” to indicate missing data, so I would assume

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Enquiry regarding survival data: Acute Myeloid Leukemia Firehose Legacy dataset

Hi Ines, This is a good question - we would not use a “0” to indicate missing data, so I would assume

Mar 31

Ali Livernois, … Ramya Madupuri5

Mar 31

KRAS mut/WT patient ID disconnect between portal/paper

Hi Ramya, Thank you very much for this information, much appreciated. Best, Alexandra From: Ramya

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KRAS mut/WT patient ID disconnect between portal/paper

Hi Ramya, Thank you very much for this information, much appreciated. Best, Alexandra From: Ramya

Mar 31

Mar 31

GSoC 2026 Introduction – UI/UX Contributor Interested in cBioPortal

Hi everyone! I'm Surabhi Rai, currently pursuing a Master's in Microbiology, with a

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GSoC 2026 Introduction – UI/UX Contributor Interested in cBioPortal

Hi everyone! I'm Surabhi Rai, currently pursuing a Master's in Microbiology, with a

Mar 31

Abdullahi Ubale Usman

Mar 31

Dear sir, I am intending to apply for Google Summer Code 2026, and wishing to choose your

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Dear sir, I am intending to apply for Google Summer Code 2026, and wishing to choose your

Mar 31

Mar 31

Cbio Portal with Nginx

Hi, I'm an advisor at SURF Research Cloud, and I'm looking into running cBioPortal on a

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Cbio Portal with Nginx

Hi, I'm an advisor at SURF Research Cloud, and I'm looking into running cBioPortal on a

Mar 31

Miu ki Yip, Benjamin Gross6

Mar 26

Private Instance Data Access Token Generation UUID

Hi Yip, I'm guessing that the value of dat.oauth2.jwtRolesPath may be incorrect. If this value is

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Private Instance Data Access Token Generation UUID

Hi Yip, I'm guessing that the value of dat.oauth2.jwtRolesPath may be incorrect. If this value is

Mar 26

Turski, Michelle, … Benjamin Gross7

Mar 25

Request for VPAT for cBioPortal

Hi Michelle, Thanks for your patience. VPAT and WCAG were discussed during our last cBioPortal Core

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Request for VPAT for cBioPortal

Hi Michelle, Thanks for your patience. VPAT and WCAG were discussed during our last cBioPortal Core

Mar 25

Andi L., Benjamin Gross3

Mar 23

MSK-CHORD overall survival

Dear Benjamin, thank you, that was the answer I was looking for. Makes sense too, within MSK-CHORD

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MSK-CHORD overall survival

Dear Benjamin, thank you, that was the answer I was looking for. Makes sense too, within MSK-CHORD

Mar 23

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

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