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cBioPortal for Cancer Genomics Discussion Group
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cBioPortal for Cancer Genomics Discussion Group
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Sachi Bhalchandra Tengse
,
Tali Mazor
2
Jul 8
Error on CBioPortal
Hi Sachi, Thanks for reaching out. Can you please try again? We were having some issues with the site
unread,
Error on CBioPortal
Hi Sachi, Thanks for reaching out. Can you please try again? We were having some issues with the site
Jul 8
Ng, Yuen-Keng
,
Tali Mazor
2
Jul 8
cbioportal access error
Hi Yuen-Keng, Thanks for reaching out. Can you please try again? We were having some issues with the
unread,
cbioportal access error
Hi Yuen-Keng, Thanks for reaching out. Can you please try again? We were having some issues with the
Jul 8
amsa...@mskcc.org
Jul 8
Start_TIME Field in Timeline Data
Hi, I'm looking at the CDSI timeline data for diagnosis events and trying to understand what the
unread,
Start_TIME Field in Timeline Data
Hi, I'm looking at the CDSI timeline data for diagnosis events and trying to understand what the
Jul 8
阿力米热
,
Ritika Kundra
2
Jul 8
API Access Issue for Public Dataset "bladder_msk_2025" from Published Study
Hello Alimire, The study is currently not in the portal. We are working with the authors to finalize
unread,
API Access Issue for Public Dataset "bladder_msk_2025" from Published Study
Hello Alimire, The study is currently not in the portal. We are working with the authors to finalize
Jul 8
Anish Bhaswanth
, …
Ram RS
9
Jul 7
hg38 for segmentation
Sorry to necro this post, but I'm in the exact situation as Anish - all my omics analyses use
unread,
hg38 for segmentation
Sorry to necro this post, but I'm in the exact situation as Anish - all my omics analyses use
Jul 7
Cristina Camps Fajol
Jul 7
cbioportal synthetic lethality
Good morning, I'm Cristina Camps, postdoctoral researcher at the IR Sant Pau in Barcelona. I'
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cbioportal synthetic lethality
Good morning, I'm Cristina Camps, postdoctoral researcher at the IR Sant Pau in Barcelona. I'
Jul 7
Sandra Vergara
,
Aaron L
2
Jul 2
cBioPortal Error
Sandra, can you try using another browser and see if the same thing happens? What browser/version are
unread,
cBioPortal Error
Sandra, can you try using another browser and see if the same thing happens? What browser/version are
Jul 2
Bullen, Catherine (NIH/NCI) [C]
,
de Bruijn, Ino
3
Jul 2
Discrete CNA Table
Hi Ino, Thanks so much for the help. I loaded in both example TCGA studies (hg19 and hg38) as
unread,
Discrete CNA Table
Hi Ino, Thanks so much for the help. I loaded in both example TCGA studies (hg19 and hg38) as
Jul 2
Stephen Rocca
Jul 2
44 Y chromosome genes found in breast cancer cell line AU-565
Hello, I'm studying common gene copy number alterations found in 4 cell lines that are sensitive
unread,
44 Y chromosome genes found in breast cancer cell line AU-565
Hello, I'm studying common gene copy number alterations found in 4 cell lines that are sensitive
Jul 2
Emily Jude - SVHNS
,
JJ Gao
3
Jul 2
Error accessing cbioportal today
Yep it started working again about an hour after that, so all good for the moment. Thanks, Emily From
unread,
Error accessing cbioportal today
Yep it started working again about an hour after that, so all good for the moment. Thanks, Emily From
Jul 2
Melek Büyükgök
,
JJ Gao
2
Jun 30
Inquiry Regarding Gleason Score and Histomorphology Data in TCGA Prostate Adenocarcinoma (PanCancer Atlas)
Hi Melek, Thanks for contacting us. One way to identity such data is to 1. open all prostate cancer
unread,
Inquiry Regarding Gleason Score and Histomorphology Data in TCGA Prostate Adenocarcinoma (PanCancer Atlas)
Hi Melek, Thanks for contacting us. One way to identity such data is to 1. open all prostate cancer
Jun 30
Sadaf Abedi
,
JJ Gao
2
Jun 30
absolute counts Vs alteration frequency
Hi Sadaf, Thanks for contacting us. The z-scores and related concepts are explained here: https://
unread,
absolute counts Vs alteration frequency
Hi Sadaf, Thanks for contacting us. The z-scores and related concepts are explained here: https://
Jun 30
Francisco Penonori
,
JJ Gao
2
Jun 30
Clarification Regarding TCGA Dataset Fields
Hi Francisco, Thanks for reporting this to us. I have logged the issue here: https://github.com/
unread,
Clarification Regarding TCGA Dataset Fields
Hi Francisco, Thanks for reporting this to us. I have logged the issue here: https://github.com/
Jun 30
Melike Eray
,
JJ Gao
2
Jun 30
Fehlermeldung
Hi Melike, This link seems working for me. It might be a one-time glitch. Would you please try it
unread,
Fehlermeldung
Hi Melike, This link seems working for me. It might be a one-time glitch. Would you please try it
Jun 30
Charles Olowookere
,
JJ Gao
2
Jun 30
cBioPortal API endpoint malfunctioning
Hi Charles, Thanks for contacting us. Please use entrezGeneIds instead of geneIds. You can try it out
unread,
cBioPortal API endpoint malfunctioning
Hi Charles, Thanks for contacting us. Please use entrezGeneIds instead of geneIds. You can try it out
Jun 30
sabire kılıçarslan
,
Nikolaus Schultz
3
Jun 26
cbioportal
Thank you 24 Haz 2025 Sal 22:40 tarihinde Nikolaus Schultz <nsch...@gmail.com> şunu yazdı:
unread,
cbioportal
Thank you 24 Haz 2025 Sal 22:40 tarihinde Nikolaus Schultz <nsch...@gmail.com> şunu yazdı:
Jun 26
aryar...@gmail.com
Jun 26
Public study not showing up
Greetings, We recently moved our self hosted cBioportal instant from Docker to AKS at our institution
unread,
Public study not showing up
Greetings, We recently moved our self hosted cBioportal instant from Docker to AKS at our institution
Jun 26
olofin daniel
,
Nikolaus Schultz
2
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,
Completed
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
Michele Kulesko
,
Nikolaus Schultz
2
Jun 24
Visualization of Exon-Level CNAs in OncoPrint
Dear Michele, This is a great question. We do not currently have a way to encode these exon level
unread,
Visualization of Exon-Level CNAs in OncoPrint
Dear Michele, This is a great question. We do not currently have a way to encode these exon level
Jun 24
Neurología CHUA
,
Nikolaus Schultz
2
Jun 24
Help with survival analysis in cBioPortal for gene groups
Hi Gema, One way to do this is via the study view. In the example below I started with the study view
unread,
Help with survival analysis in cBioPortal for gene groups
Hi Gema, One way to do this is via the study view. In the example below I started with the study view
Jun 24
Matteo Valerio
,
Aaron L
2
Jun 23
Request to mention "pyBioPortal" on cBioPortal’s Web API Clients page
Hi Matteo, Thanks for reaching and and for developing this tool! We'll bring this up at our next
unread,
Request to mention "pyBioPortal" on cBioPortal’s Web API Clients page
Hi Matteo, Thanks for reaching and and for developing this tool! We'll bring this up at our next
Jun 23
LUCILE MARIE PAULE JEUSSET
,
Nikolaus Schultz
2
Jun 19
CNV discrepancy PanCancerAtlas vs GDC
Dear Lucile, Thank you for reaching out. I am not surprised that you see differences in copy-number
unread,
CNV discrepancy PanCancerAtlas vs GDC
Dear Lucile, Thank you for reaching out. I am not surprised that you see differences in copy-number
Jun 19
Bullen, Catherine (NIH/NCI) [C]
,
Benjamin Gross
4
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,
Completed
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 Gross
3
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,
Completed
Question regarding data harmonizing
Thank you! On Mon, Jun 16, 2025 at 9:54 AM Benjamin Gross <benjami...@gmail.com> wrote: Hi
Jun 16
HIROMI YANASE
,
Prasanna Jagannathan
5
Jun 16
[cbioportal] Uploading public data
Hello Jag, Thank you for your support. I'll try to upload the data to my private cBioPortal.
unread,
[cbioportal] Uploading public data
Hello Jag, Thank you for your support. I'll try to upload the data to my private cBioPortal.
Jun 16
Ji Hen Lau
,
Benjamin Gross
3
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,
Completed
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
Vincent Duchaos
,
Prasanna Jagannathan
4
Jun 13
[On-prems instance] Unknown sample id found
Hi Vincent The usual convention is that each study will have its patients named as <studyname>-
unread,
[On-prems instance] Unknown sample id found
Hi Vincent The usual convention is that each study will have its patients named as <studyname>-
Jun 13
母一丹
,
Prasanna Jagannathan
2
Jun 12
Error
Hi, Thanks for contacting the cbioportal google group. Is this error happening consistently? I was
unread,
Error
Hi, Thanks for contacting the cbioportal google group. Is this error happening consistently? I was
Jun 12
Fatemeh Shirazi
,
Prasanna Jagannathan
2
Jun 11
Converting cBioPortal TARGET datasets to ANNOVAR format - VCF annotation showing no matches
Hi Fatemeh Thanks for contacting cBioPortal google group. In the Annovar commandline that was shared,
unread,
Converting cBioPortal TARGET datasets to ANNOVAR format - VCF annotation showing no matches
Hi Fatemeh Thanks for contacting cBioPortal google group. In the Annovar commandline that was shared,
Jun 11
Ji Hen Lau
,
Prasanna Jagannathan
5
Jun 11
MAF File Validation Warning - Variant_Classification Mapping Issues
Thanks for the clarification ! On Wed, 11 Jun 2025 at 23:46, Prasanna Jagannathan <jagnathan@gmail
unread,
MAF File Validation Warning - Variant_Classification Mapping Issues
Thanks for the clarification ! On Wed, 11 Jun 2025 at 23:46, Prasanna Jagannathan <jagnathan@gmail
Jun 11