The NIH Common Fund Data Ecosystem will be hosting a hackathon on NIH Common Fund data sets from May 9 – 13! This hackathon has both synchronous and asynchronous work, with concentrated hackathon sessions on specific data sets. Participants can attend whichever hackathon sessions they are interested in. Participants can also form working groups and tackle issues throughout the week organized in a GitHub repository. There is no minimum work requirement, all are welcome to participate as much or as little as schedules and interest allow!
See the schedule and find more information about this event, and register for the hackathon here.
– Gain experience with Common Fund data sets and have access to data set curators
– See an immediate product from a short burst of concentrated effort
– Meet researchers with common interests and potentially spur collaborations or funding efforts
Participant Skill Level:
The hackathon is open to the public, and anyone can attend. Despite the name “hackathon”, participants don’t need to be experts in computer science! The most important criteria is interest in the data sets, and some familiarity with the command line and GitHub is helpful but not required.
Common Fund Session Details:
Gabrielle Miller Kids First Pediatric Research Program
The goal of the Gabriella Miller Kids First Pediatric Research Program is to help researchers uncover new insights into the biology of childhood cancer and structural birth defects, including the discovery of shared genetic pathways between these disorders.
Kids First will host a session on accessing and using federated Common Fund Data Ecosystem graph data through the Kids First-Human BioMolecular Atlas Program graph database with an API.
Stimulating Peripheral Activity to Relieve Conditions
The Common Fund’s Stimulating Peripheral Activity to Relieve Conditions (SPARC) program accelerates development of therapeutic devices that modulate electrical activity in nerves to improve organ function.
SPARC will host a session on providing information on access to SPARC resources via the SPARC portal and associated APIs.
The Human Microbiome project has DNA sequencing data to characterize the microbiome in healthy adults and people with specific microbiome-associated diseases. It also contains integrated datasets with multiple biological projects from the microbiome and host over time for specific microbiome associated diseases.
A session on Human Microbiome Project data will involve obtaining this data from the Common Fund Data Ecosystem search portal and working with it using Amazon Web Services.
Common Fund Data Ecosystem Search Portal
The Common Fund Data Ecosystem Coordinating Center supports efforts to make Common Fund data sets more findable, accessible, interoperable, and reusable for the scientific community through collaboration, end-user training, and data set sustainability.
The Common Fund Data Ecosystem Portal Demonstration will be a demonstration session on how to access data in the Portal.
Data Harmonization and Visualization in R with Genotype-Tissue Expression Data
The Genotype-Tissue Expression Program established a data resource and tissue bank to study the relationship between genetic variants (inherited changes in DNA sequence) and gene expression (how genes are turned on and off) in multiple human tissues and across individuals.
This session will showcase how R can be used for a variety of data visualizations with Gene Tissue Expression (GTEx) data.
For questions, please contact email@example.com.