The latest news from The Hyve on Open Source solutions for bioinformatics

Pan-European Health Data Networks Meeting

May 14, 2018 | By Kees van Bochove 0
Last Wednesday, we held a meeting hosted by HealthRI at NKI in Amsterdam with representatives from several European health data networks that either have recently started or will soon start. Most of these networks are funded by national governments,[…]
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Upscaling tranSMART and Glowing Bear

May 07, 2018 | By Gijs Kant 0
The tranSMART data warehouse was originally designed for use in individual clinical studies with hundreds or thousands participants in which maybe tens of thousands observations were gathered. However, today tranSMART is also being adopted by[…]
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Highlights webinar on health data research infrastructures

April 13, 2018 | By Jolanda Strubel 0
The Hyve has started a new activity: webinars. Our first episode was on health data research infrastructures. This topic has been attracting a lot of attention recently. For instance, in Germany or Switzerland the government decided to invest in a[…]
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How to transform European patient data to the OMOP Common Data Model

March 19, 2018 | By Maxim Moinat 0
The first OHDSI Symposium in Europe will be held in Rotterdam (NL) on March 23 2018, hosted by the Erasmus Medical Centre. As with previous international OHDSI symposiums, Maxim and Kees will attend the meeting. Stefan, Julia, Irina, and Marinel[…]
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Downloading data from the cBioportal Oncoprint view

March 09, 2018 | By Dionne Zaal 0
The OncoPrint view in cBioPortal is a user friendly visualization for genetic alterations. All types of data from a cancer genomic study are integrated in the OncoPrint view: in one overview you can see mutations, expression levels and copy number[…]
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Python and R client: data retrieval for analysis made easier

March 05, 2018 | By Irina Pulyakhina 0
To simplify extraction of a specific data subset from a tranSMART data warehouse for analysis with Python or R, The Hyve developed both a tranSMART Python and a R client.
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Identifying real-world security needs: user management in context of real world data and RADAR platform

February 22, 2018 | By Irina Pulyakhina 0
Data, especially real-world medical data, is eminently sensitive. What would happen if all the GPS tracking data of a research project would become public, along with identifiable information? Can data that has been polluted by a hacker still be[…]
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Adding your own annotations to mutations in cBioPortal

February 09, 2018 | By Sjoerd van Hagen 0
One of the key challenges in cancer research is to find patients that will respond well to targeted drug therapy. Specific mutations in a patient’s tumor can be an indication of the patient’s potential responsiveness to such therapy. Recently we[…]
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Six quick tips to start making your data FAIR

February 01, 2018 | By Jarno van Erp 0
This is an update of a previous blog post which listed four quick and easy tips. We have updated the old tips and added 2 new tips at the end of the post.  Making your data “FAIR” is something you hear more and more. In the age of creating large[…]
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Glowing Bear: the new tranSMART UI is almost here!

January 19, 2018 | By Irina Pulyakhina 0
Update: Glowing Bear is now publicly available! Read the blog post here.   Why tranSMART needed a new UI tranSMART is a data warehouse which enables sharing, storing and analyzing various types of biomedical data. It was originally developed by[…]
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