Question about open PBTA database

[Hema Venugopal]

Dear cBioportal colleague,

 

Hereby I (MD-PhD researcher in the Netherlands) am approaching you with a question.

 

I am using the open access PBTA-data from PedcBioPortal for one of my studies.

I am integrating these data with data from the literature to create a larger dataset.

However, there might ofcourse be duplicate patients in studies from the literature and the Open PBTA-data.

Would it maybe be possible to see from which center the patients from the open PBTA database originate and the year of inclusion, so that I can identify potential duplicates?

 

Thank you so much for your help in advance!

 

Best,

Hema

 

Kind regards,

Hema Venugopal

 

MD | PhD-candidate Neuro-Oncology

BIG-registration number: 59930838401

E-mail: H.Venu...@prinsesmaximacentrum.nl ; H.Venu...@umcutrecht.nl

 

      

 

Princess Máxima Center for Pediatric Oncology

Princess Máxima Center for Pediatric Oncology

PO Box 113, 3720 AC Bilthoven | Heidelberglaan 25, 3584 CS Utrecht | https://www.prinsesmaximacentrum.nl

 

University Medical Center Utrecht

UMC Utrecht Brain Center, dept of Neurology & Neurosurgery

University Medical Center Utrecht | PO Box 85500, 3508 GA Utrecht, The Netherlands | Heidelberglaan 100, 3584 CX Utrecht | www.umcutrecht.nl

 

 

Thank you so much in advance for your help!

 

Best,

Hema

 

[Zeynep Karagöz]

Hi Hema, 

Thanks for reaching out. 
The OpenPBTA study data in PedcBioPortal matches that of v23 of the study. It's best to contact the authors of the publication for possible identification of patient data sources. You can find the manuscript information in the study description on top of the page. 

Best,

Zeynep Karagöz

Product Owner & Data Engineer

E zey...@thehyve.nl

T +31 30 700 9713

W thehyve.nl

   

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[JJ Gao]

Just to add that for pedcbioportal questions, you can also reach out to: pedcbio...@d3b.center. 

To view this discussion visit https://groups.google.com/d/msgid/cbioportal/CAJEmdvcDhSotjo%2BW1aUuTxZKd-NvsrT4bwE47qiP%3DGnmafBFwA%40mail.gmail.com.

[Hema Venugopal]

Dear Zeynep and JianJiong,

 

Thank you so much for your swift help!

I will approach the authors of the PedcBioPortal with my questions.

 

Kind regards,

Hema Venugopal

 

MD | PhD-candidate Neuro-Oncology

BIG-registration number: 59930838401

E-mail: H.Venu...@prinsesmaximacentrum.nl ; H.Venu...@umcutrecht.nl

 

      

 

Princess Máxima Center for Pediatric Oncology

Princess Máxima Center for Pediatric Oncology

PO Box 113, 3720 AC Bilthoven | Heidelberglaan 25, 3584 CS Utrecht | https://www.prinsesmaximacentrum.nl

 

University Medical Center Utrecht

UMC Utrecht Brain Center, dept of Neurology & Neurosurgery

University Medical Center Utrecht | PO Box 85500, 3508 GA Utrecht, The Netherlands | Heidelberglaan 100, 3584 CX Utrecht | www.umcutrecht.nl

 

From: JJ Gao <jianji...@gmail.com>
Sent: Tuesday, 12 November 2024 19:56
To: Zeynep Karagöz <zey...@thehyve.nl>
Cc: Hema Venugopal <h.venu...@prinsesmaximacentrum.nl>; cbiop...@googlegroups.com
Subject: Re: [cbioportal] Question about open PBTA database

 

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