humanmine.ipynb Version 1
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Created: 12th Jul 2022 at 11:08
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Version 1 (earliest) Created 12th Jul 2022 at 11:08 by Jean-Marie Burel
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https://orcid.org/0000-0002-1789-1861
A space managed by WorkflowHub administrators for teams that don't want/need to manage their own space.
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Software and data format standards for management of microscopy image data. Joint project between international private and public research
Space: Independent Teams
Public web page: https://www.openmicroscopy.org/
Summary
This notebook shows how to integrate genomic and image data resources. This notebook looks at the question Which diabetes related genes are expressed in the pancreas?
Steps:
- Query humanmine.org, an integrated database of Homo sapiens genomic data using the intermine API to find the genes.
- Using the list of found genes, search in the Image Data Resource (IDR) for images linked to the genes, tissue and disease.
We use the intermine API and the IDR API
The notebook can be launched ...
