Groups

cBioPortal for Cancer Genomics Discussion Group

1–30 of 5273

This mailing list is for questions that are related to cbioportal.org. In order to filter out spams, every message is moderated. If you don't see your message posted immediately, it will be moderated and posted later.

0 selected

内田士朗, Prasanna Jagannathan2

Nov 25

Inquiry About Downloading “mRNA Expression Z-Score Relative to All Samples (log RNA-seq V2 RSEM)” for Breast Invasive Carcinoma (TCGA, PanCancer Atlas)

Hi Shiro Thanks for emailing the cBioPortal team. The link to the entire dataset is available next to

unread,

Inquiry About Downloading “mRNA Expression Z-Score Relative to All Samples (log RNA-seq V2 RSEM)” for Breast Invasive Carcinoma (TCGA, PanCancer Atlas)

Hi Shiro Thanks for emailing the cBioPortal team. The link to the entire dataset is available next to

Nov 25

Costello, Heather, Ritika Kundra2

Nov 26

Pptc link heads-up

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

unread,

Pptc link heads-up

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

Nov 26

Emilia Manko, … Baby Anusha Satravada3

Nov 24

Access to HCMI dataset

Hi Emilia, Thank you for reaching out. Though the study is already available on cBioPortal, the

unread,

Access to HCMI dataset

Hi Emilia, Thank you for reaching out. Though the study is already available on cBioPortal, the

Nov 24

Gerardo Ramirez Mejia, … Nikolaus Schultz5

Nov 20

Doubt about some samples

Dear Prasanna. Thanks a lot for your kindly response. The additional samples were observed using the

unread,

Doubt about some samples

Dear Prasanna. Thanks a lot for your kindly response. The additional samples were observed using the

Nov 20

Rory Johnson, Zeynep Karagöz3

Nov 4

can't see expression data for TCGA

Zeynep thanks so much for your helpful reply and excellent support! I'll check this out.

unread,

can't see expression data for TCGA

Zeynep thanks so much for your helpful reply and excellent support! I'll check this out.

Nov 4

Jane Liang, Nikolaus Schultz2

Oct 22

Inquiry About Availability of VCF Files from MSG_CHORD

Hi Jingyun, The mutations data for the MSK-CHORD study (in MAF format) is available via the

unread,

Inquiry About Availability of VCF Files from MSG_CHORD

Hi Jingyun, The mutations data for the MSK-CHORD study (in MAF format) is available via the

Oct 22

Mai, Nick, Benjamin Gross2

Oct 2

Dataset Upload for Cancer Discovery Submission

Hi Nick, Please send an email to cdsi [at] mskcc.org and we can help you with this request. Best, -

unread,

Dataset Upload for Cancer Discovery Submission

Hi Nick, Please send an email to cdsi [at] mskcc.org and we can help you with this request. Best, -

Oct 2

dan jin, Benjamin Gross5

Oct 3

mRNA expression, RSEM( Batch normalized from illumina Hiseq_RNAseq)

Thank you Benjamin! I will wait to see if anyone else in the group could provide some advice. Best

unread,

mRNA expression, RSEM( Batch normalized from illumina Hiseq_RNAseq)

Thank you Benjamin! I will wait to see if anyone else in the group could provide some advice. Best

Oct 3

Summer Henderson, … Benjamin Gross12

Oct 7

queries regarding data sets

Thank you Benjamin, Do you know how we find which group it is in order to reach out? Thank you,

unread,

queries regarding data sets

Thank you Benjamin, Do you know how we find which group it is in order to reach out? Thank you,

Oct 7

olofin daniel, Nikolaus Schultz2

Jun 24

Inquiry About Using cBioPortal Data for Publication

Dear Daniel, Thank you for your interest in using data from cBioPortal. There are no restrictions

unread,

Inquiry About Using cBioPortal Data for Publication

Dear Daniel, Thank you for your interest in using data from cBioPortal. There are no restrictions

Jun 24

Bullen, Catherine (NIH/NCI) [C], Benjamin Gross4

Jun 18

Mutation Count discrepancy

Hi Catie, I've added Ramya Madupuri to this email. She is on our data curation team and will be

unread,

Mutation Count discrepancy

Hi Catie, I've added Ramya Madupuri to this email. She is on our data curation team and will be

Jun 18

Hao-Kuen Lin, Benjamin Gross3

Jun 16

Question regarding data harmonizing

Thank you! On Mon, Jun 16, 2025 at 9:54 AM Benjamin Gross <benjami...@gmail.com> wrote: Hi

unread,

Question regarding data harmonizing

Thank you! On Mon, Jun 16, 2025 at 9:54 AM Benjamin Gross <benjami...@gmail.com> wrote: Hi

Jun 16

Ji Hen Lau, Benjamin Gross3

Jun 15

Import patient without sample

Hi Benjamin, Thanks for the clarification ! Ji Hen On Saturday, 14 June 2025 at 00:04:16 UTC+8

unread,

Import patient without sample

Hi Benjamin, Thanks for the clarification ! Ji Hen On Saturday, 14 June 2025 at 00:04:16 UTC+8

Jun 15

Qingzhi Liu, Pieter Lukasse2

Jun 2

Request for Clinical Information Website

Hi Qingzhi, Thanks for reporting. Can you please add some more information on where this is happening

unread,

Request for Clinical Information Website

Hi Qingzhi, Thanks for reporting. Can you please add some more information on where this is happening

Jun 2

Guy Froyen, de Bruijn, Ino5

Jun 2

Hi Ino, It's a pity that the COSMIC column is no longer available in cBioPortal but I understand

unread,

Hi Ino, It's a pity that the COSMIC column is no longer available in cBioPortal but I understand

Jun 2

Aharon Bensadoun, Pieter Lukasse2

Jun 2

Entra ID saml using Docker

Hi Aharon, Thanks for your question. I'm not sure if you already found the deployment docs? You

unread,

Entra ID saml using Docker

Hi Aharon, Thanks for your question. I'm not sure if you already found the deployment docs? You

Jun 2

Igor Entin, de Bruijn, Ino2

Jun 6

Fw: Gene expression data with sensitivity scores

Hi Igor, Thanks for reaching out! From the homepage there is a link to filter by “data type”. You can

unread,

Fw: Gene expression data with sensitivity scores

Hi Igor, Thanks for reaching out! From the homepage there is a link to filter by “data type”. You can

Jun 6

Strunilin, Ilya, Aaron L2

May 27

Hi Ilya, Please try again thanks, it should be resolved. --Aaron On Tue, May 27, 2025 at 7:25 AM

unread,

Hi Ilya, Please try again thanks, it should be resolved. --Aaron On Tue, May 27, 2025 at 7:25 AM

May 27

Kinga Michalik, de Bruijn, Ino2

Jun 6

Functionalities

Hi Kinga, Thanks for reaching out! > 1. do the reverse selection? For now I can only select

unread,

Functionalities

Hi Kinga, Thanks for reaching out! > 1. do the reverse selection? For now I can only select

Jun 6

Ana Clara Carrera, … de Bruijn, Ino12

Jun 6

cBioPortal user reported error

Hi Rachel, Do you still see this issue? Thanks! Ino From: cbiop...@googlegroups.com <cbioportal@

unread,

cBioPortal user reported error

Hi Rachel, Do you still see this issue? Thanks! Ino From: cbiop...@googlegroups.com <cbioportal@

Jun 6

Andrea Aquino Cruz, Priti Kumari3

Apr 22

Request for TP53 Data

Hi Andrea, You can download all the data from the Datahub. Hope this helps, Priti On Tue, Apr 22,

unread,

Request for TP53 Data

Hi Andrea, You can download all the data from the Datahub. Hope this helps, Priti On Tue, Apr 22,

Apr 22

彭仲特, Priti Kumari2

Apr 21

Hi zhongte, Source data for TCGA studies are available in the Genomic Data Commons. They also have

unread,

Hi zhongte, Source data for TCGA studies are available in the Genomic Data Commons. They also have

Apr 21

Lucas Wang, Priti Kumari2

Apr 22

Hi Lucas, You can download all mutations from the Datahub. We do not keep information on the

unread,

Hi Lucas, You can download all mutations from the Datahub. We do not keep information on the

Apr 22

Ji Hen Lau, Priti Kumari4

Apr 22

Issue with Discrete CNA Not Showing in Mutations Tab (CGHcall, sWGS)

Hi, I think I kind of sorted the issue out. It seems there's some internal data structure error

unread,

Issue with Discrete CNA Not Showing in Mutations Tab (CGHcall, sWGS)

Hi, I think I kind of sorted the issue out. It seems there's some internal data structure error

Apr 22

Filliol, Aveline, de Bruijn, Ino2

Apr 11

Multiplex IF data deposition

Hi Aveline, Thanks so much for reaching out! We can def support visualization of multiplex IF data We

unread,

Multiplex IF data deposition

Hi Aveline, Thanks so much for reaching out! We can def support visualization of multiplex IF data We

Apr 11

MOLONEY, Kate (SALISBURY NHS FOUNDATION TRUST), … Benjamin Gross6

Apr 18

GENIE data access

Ok, let me know if you run into any more issues logging in. -Benjamin On Apr 18, 2025, at 5:21 PM,

unread,

GENIE data access

Ok, let me know if you run into any more issues logging in. -Benjamin On Apr 18, 2025, at 5:21 PM,

Apr 18

Soheil Shams, Prasanna Jagannathan3

Apr 9

downloading expression and mutation data

Dear Jag Thank you for the helpful reply. Best regards Soheil From: Prasanna Jagannathan <

unread,

downloading expression and mutation data

Dear Jag Thank you for the helpful reply. Best regards Soheil From: Prasanna Jagannathan <

Apr 9

Md. Razib Khan, Pieter Lukasse3

Apr 1

Request for instructions for generating waterfall plot using cBioportal

Hi Razib, You are right, those steps are outdated. I have raised this issue as well. Just for the

unread,

Request for instructions for generating waterfall plot using cBioportal

Hi Razib, You are right, those steps are outdated. I have raised this issue as well. Just for the

Apr 1

Zheng, Nianye, Ritika Kundra2

Apr 2

inquriry about impact data before 2016

Hi Nianye, I will move this to our internal MSK email to discuss this further. Thanks, Ritika On Thu,

unread,

inquriry about impact data before 2016

Hi Nianye, I will move this to our internal MSK email to discuss this further. Thanks, Ritika On Thu,

Apr 2

Harika Gannu, … de Bruijn, Ino7

May 13

compatible keycloak version for cbioportal version 6.0.24

Hi Niels, Thanks for checking in – replied here: https://github.com/cBioPortal/cbioportal/issues/

unread,

compatible keycloak version for cbioportal version 6.0.24

Hi Niels, Thanks for checking in – replied here: https://github.com/cBioPortal/cbioportal/issues/

May 13

Search

Clear search

Close search

Google apps

Main menu