Diabetes related genes expressed in pancreas
Version 1

Workflow Type: Jupyter
Stable

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 in My Binder

Inputs

Parameters needed to configure the workflow:

  • TISSUE = "Pancreas"
  • DISEASE = "diabetes"

Ouputs

  • List of genes found using HumanMine
  • List of images from IDR for one of the gene found

Version History

Version 1 (earliest) Created 23rd Nov 2021 at 11:28 by Jean-Marie Burel

Deleted humanmine_v2.ipynb


Open master e87df55
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Citation
Burel, J.-M. (2021). Diabetes related genes expressed in pancreas. WorkflowHub. https://doi.org/10.48546/WORKFLOWHUB.WORKFLOW.242.1
Activity

Views: 683   Downloads: 7

Created: 23rd Nov 2021 at 11:28

Last updated: 23rd Nov 2021 at 11:46

Last used: 10th Aug 2022 at 21:18

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