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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Improved display of Germline mutations

May 14, 2018 | By Sander Tan 2
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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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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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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Simple data loading into cBioPortal with Docker

December 28, 2017 | By Sander Tan 3
In our recent blogpost we discussed an easy solution to set up a local instance of cBioPortal using Docker. The next step is to load a study into the database.
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cBioPortal setup made easy using Docker

November 27, 2017 | By Sander Tan 2
The easiest way to install cBioPortal is using Docker. The Hyve has helped a number of clients in the past with installation of cBioPortal on their infrastructure. By using a Docker image all dependencies for cBioPortal are included, and default[…]
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CIViC in cBioPortal

August 07, 2017 | By Sander Tan 0
CIViC, a resource for clinical interpretation of cancer variants, was added to cBioPortal by The Hyve. In the decade of precision medicine, accurate and clinically relevant information on variants in cancer patients is extremely important. This[…]
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The Hyve joins first cBioPortal hackathon

December 15, 2015 | By Pieter Lukasse 0
Last week we had the privilege of joining the first cBioPortal hackathon, hosted by Dana Farber Cancer Institute in Boston. The group (with developers from MSKCC, Dana Farber, The Hyve and Princess Margaret Cancer Centre) was divided into four[…]
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cBioPortal goes Open Source

May 04, 2015 | By Ward Weistra 0
The cBioPortal for Cancer Genomics is a well known, and well loved, interface for interactive analysis of cancer data. It has been developed, maintained and is also heavily used by the Memorial Sloan Kettering Cancer Center in New York.
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