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Samuel Kellen, … Tim Kuijpers5

1:35 PM

Unable to iniitalize cBioPortal off Docker

Hello, Tim I've tried redoing the steps from the documentation after purging the images and

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Unable to iniitalize cBioPortal off Docker

Hello, Tim I've tried redoing the steps from the documentation after purging the images and

1:35 PM

11:43 AM

Uploading-Analyzing public/personal data

Hi There, Good morning! My name is Badal working at Kansas Univ. Mad. Center, Kansas. I would like to

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Uploading-Analyzing public/personal data

Hi There, Good morning! My name is Badal working at Kansas Univ. Mad. Center, Kansas. I would like to

11:43 AM

SHI, YUFEI, Schultz, Nikolaus2

8:38 AM

RE: Reminder# cBioportal# OS for (Col6a3) by using cBioportal & KM plotter

Hi, Do both tools use the same threshold to define over-expression? That may explain the differences.

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RE: Reminder# cBioportal# OS for (Col6a3) by using cBioportal & KM plotter

Hi, Do both tools use the same threshold to define over-expression? That may explain the differences.

8:38 AM

Kwiatkowski, David J.,MD, PhD, Nikolaus Schultz7

7:48 AM

Structural variants on Genie cbio

Just a clarification. Below is what the table looks like after filtering for Peritoneal Mesothelioma

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Structural variants on Genie cbio

Just a clarification. Below is what the table looks like after filtering for Peritoneal Mesothelioma

7:48 AM

Miller, Michael L., Nikolaus Schultz2

Apr 25

TERT promoter dataset - PMID 33285287

Hi Michael, Most of these samples should be included in the (much larger) AACR Project GENIE cohort,

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TERT promoter dataset - PMID 33285287

Hi Michael, Most of these samples should be included in the (much larger) AACR Project GENIE cohort,

Apr 25

Badal Sharma 211908

Apr 25

i need a queary of 26 gene for my pan cancer analysis

HDAC6, TLE1, TLE4, SFRP1, APC, TCF7L1, WIF1, TLE2, DKK1, TCF7L2, AXIN1, SFRP2, LRP5, TCF7, TLE3,

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i need a queary of 26 gene for my pan cancer analysis

HDAC6, TLE1, TLE4, SFRP1, APC, TCF7L1, WIF1, TLE2, DKK1, TCF7L2, AXIN1, SFRP2, LRP5, TCF7, TLE3,

Apr 25

Choe, Michelle, Benjamin Gross3

Apr 25

Open Pediatric Cancer Project

Hello, Thank you so much for responding! I realized I was just on the wrong site and the study I

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Open Pediatric Cancer Project

Hello, Thank you so much for responding! I realized I was just on the wrong site and the study I

Apr 25

Qi, Yuwei, Benjamin Gross2

Apr 25

TCGA PanCancer Altas Radiation treatment details

Hi Yuwei, Thank you for your patience. I think you will have to go back to the publication to find

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TCGA PanCancer Altas Radiation treatment details

Hi Yuwei, Thank you for your patience. I think you will have to go back to the publication to find

Apr 25

Rafi Danino, Benjamin Gross2

Apr 25

expanding my dataset

Hi Rafi, Thank you for your patience. You can use the data type search box to narrow down studies by

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expanding my dataset

Hi Rafi, Thank you for your patience. You can use the data type search box to narrow down studies by

Apr 25

Apr 25

Lung Squamous cell Carcinoma

Good Morning, Does the data type copy number come from dna sequencing or are they inferred in

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Lung Squamous cell Carcinoma

Good Morning, Does the data type copy number come from dna sequencing or are they inferred in

Apr 25

Tebon, Peyton, Nikolaus Schultz3

Apr 24

Sarcoma panel sequencing for cBioPortal

Hi Niki, Thanks for the quick response! We will review the data formats you linked and get our data

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Sarcoma panel sequencing for cBioPortal

Hi Niki, Thanks for the quick response! We will review the data formats you linked and get our data

Apr 24

Ikhapoh, Izuagie, Nikolaus Schultz3

Apr 24

Bladder cancer datasets

Hi Niki, Thank you. This helps. Best, Izuagie. Get Outlook for iOS From: Nikolaus Schultz <

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Bladder cancer datasets

Hi Niki, Thank you. This helps. Best, Izuagie. Get Outlook for iOS From: Nikolaus Schultz <

Apr 24

Daiana Toader - QIAGEN, Avery Wang2

Apr 24

https://www.cbioportal.org/webservice.do?cmd=getCancerStudies not working

Good morning Daiana, `Webservice.do` was deprecated with the latest release of cBioPortal. If you

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https://www.cbioportal.org/webservice.do?cmd=getCancerStudies not working

Good morning Daiana, `Webservice.do` was deprecated with the latest release of cBioPortal. If you

Apr 24

김주원, Nikolaus Schultz3

Apr 24

Issues with Displaying Mutations in Mutation Mapper

Thank you! It has been completely resolved. It's all thanks to you :) 2024년 4월 24일 수요일 오후 9시 17분

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Issues with Displaying Mutations in Mutation Mapper

Thank you! It has been completely resolved. It's all thanks to you :) 2024년 4월 24일 수요일 오후 9시 17분

Apr 24

Apr 24

SAML setting up_Cbioportal version and Keycloak version

Hi, I have two questions: 1) I set up SAML using cBioportal 5.4.10 and keycloak:4.8.3.Final. Is this

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SAML setting up_Cbioportal version and Keycloak version

Hi, I have two questions: 1) I set up SAML using cBioportal 5.4.10 and keycloak:4.8.3.Final. Is this

Apr 24

Shayna Simonstein, Avery Wang3

Apr 23

Downloading data from sarcoma_msk_2022 (7494 patients)

Great, thank you so much for checking Avery! On Monday, April 22, 2024 at 9:32:00 AM UTC-4 Avery Wang

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Downloading data from sarcoma_msk_2022 (7494 patients)

Great, thank you so much for checking Avery! On Monday, April 22, 2024 at 9:32:00 AM UTC-4 Avery Wang

Apr 23

Anurag Saxena, jagn...@gmail.com3

Apr 22

Upgrading cbp installation from 3.7.15 to 5.4.10

Thank you Jag. I decided to create a new instance instead of upgrading to make the process easier on

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Upgrading cbp installation from 3.7.15 to 5.4.10

Thank you Jag. I decided to create a new instance instead of upgrading to make the process easier on

Apr 22

Phang, Tzu, Tali Mazor3

Apr 22

AACR Molecular Biology in Clinical Oncology workshop, San Diego 2024

Hi Tali, Happy to ZOOM and discuss the workshop. I am in Denver Mountain time: Thursday ( 04-25-2024

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AACR Molecular Biology in Clinical Oncology workshop, San Diego 2024

Hi Tali, Happy to ZOOM and discuss the workshop. I am in Denver Mountain time: Thursday ( 04-25-2024

Apr 22

Kaela Boyce, Nikolaus Schultz2

Apr 22

Lung Squamous Cell Carcinoma

Hi Kaela, DNA copy-number data in cBioPortal comes solely from DNA data - in the case of TCGA, it is

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Lung Squamous Cell Carcinoma

Hi Kaela, DNA copy-number data in cBioPortal comes solely from DNA data - in the case of TCGA, it is

Apr 22

nhodge, … Kaela Boyce3

Apr 22

Lung Squamous Cell Carcinoma

Good afternoon, Thank you for your kind response. Based on this information does the data type "

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Lung Squamous Cell Carcinoma

Good afternoon, Thank you for your kind response. Based on this information does the data type "

Apr 22

Ikhapoh, Izuagie, Avery Wang2

Apr 22

Uploading public data

Good morning Izuagie, Thanks for reaching out. You can add more details about the specific questions

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Uploading public data

Good morning Izuagie, Thanks for reaching out. You can add more details about the specific questions

Apr 22

Kevin Wang, Charles Haynes3

Apr 18

SAML setup problem

Hi Charles, Thanks very much for the help. I am following the tutorial to install cbioportal with

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SAML setup problem

Hi Charles, Thanks very much for the help. I am following the tutorial to install cbioportal with

Apr 18

Nehir Kızılilsoley, … Ramya Madupuri3

Apr 17

TCGA-GBM GeneExp subtype annotations

Hi Nehir, Thanks for reaching out. The transcriptional subtype annotations for TCGA-GBM on cBioPortal

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TCGA-GBM GeneExp subtype annotations

Hi Nehir, Thanks for reaching out. The transcriptional subtype annotations for TCGA-GBM on cBioPortal

Apr 17

Shayna Simonstein

Apr 17

Question about Importer not saving any records to the database

Hello, I am trying to upload the gbm_cptac_2021 study to an internal cbioportal instance but am

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Question about Importer not saving any records to the database

Hello, I am trying to upload the gbm_cptac_2021 study to an internal cbioportal instance but am

Apr 17

Apr 16

Good Day, I wanted to inquire about does the data type copy number come from dna sequencing or is it

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Good Day, I wanted to inquire about does the data type copy number come from dna sequencing or is it

Apr 16

aghil hooshmand, de Bruijn, Ino3

Apr 16

cbioportal for liquid biopsy data

My pleasure! Best wishes, Ino From: aghil hooshmand <aghil.h...@gmail.com> Date: Tuesday,

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cbioportal for liquid biopsy data

My pleasure! Best wishes, Ino From: aghil hooshmand <aghil.h...@gmail.com> Date: Tuesday,

Apr 16

Ísis Salviano Soares de Amorim

Apr 16

Data normalization

Dear, I would like ask if data of the mRNA Expression (RNA Seq V2 RSEM) (log2(value+1)) or Z-scores

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Data normalization

Dear, I would like ask if data of the mRNA Expression (RNA Seq V2 RSEM) (log2(value+1)) or Z-scores

Apr 16

Shatnawi, Aymen, … Ramya Madupuri3

Apr 16

Query Regarding Dataset Description

Hi Aymen, Thanks for reaching out. The expression data in the METABRIC study is log2-intensities. We

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Query Regarding Dataset Description

Hi Aymen, Thanks for reaching out. The expression data in the METABRIC study is log2-intensities. We

Apr 16

Thalambedu, Nishanth, jagn...@gmail.com2

Apr 15

QUERY in identifying Gene mutations

Hi Nishanth It is possible to select any number of genes to filter in the study view page. Steps:

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QUERY in identifying Gene mutations

Hi Nishanth It is possible to select any number of genes to filter in the study view page. Steps:

Apr 15

Sirohi, Deepika, jagn...@gmail.com2

Apr 15

Digital slide images

Hi Deepika, The slides for TCGA data are from external websites. For example/- This slide for a

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Digital slide images

Hi Deepika, The slides for TCGA data are from external websites. For example/- This slide for a

Apr 15

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