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

Gene set visualization in the new cBioPortal OncoPrint

June 20, 2018 | By Sander Tan 0
The Hyve recently added gene set scoring visualization to cBioPortal OncoPrint. To give you an example, we created our own instance that has the TCGA glioblastoma dataset loaded with gene sets identified by Roel Verhaak and colleagues. Using the[…]
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Boston’s Bio-IT World conference revisited

May 23, 2018 | By Jolanda Strubel 0
Looking back at a successful Bio-IT World conference in Boston, May 15-17, we’d like to give you an impression of The Hyve’s contribution to this year’s event.
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Easy and secure study management via RADAR-base

May 16, 2018 | By Nivethika Mahasivam 0
The RADAR-base Management Portal is a one-stop shop for managing remote patient monitoring studies. . The portal is designed to facilitate easy and secure management of studies and data collected by wearable devices.
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Improved display of Germline mutations

May 14, 2018 | By Sander Tan 0
Recently the display of germline mutations in the Oncoprint view was developed by The Hyve and has now been added to cbioportal.org. Inherited germline mutations can increase the probability of developing a tumor. This is for example well known for[…]
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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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