The course opened Tuesday, September 1, 2020 in parallel with the 1st HuBMAP Portal Release. It will welcome students continuously until the 2nd HuBMAP Portal Release begin of January 2021.
The course aims to provide you with:
Theoretical and practical understanding of different single-cell tissue analysis techniques.
Expertise in single-cell data harmonization used to federate data from different individuals analyzed using different technologies in diverse labs.
Hands-on skills in the design and usage of semantic ontologies that describe human anatomy, cell types, and biomarkers (e.g., marker genes or proteins).
Knowledge on the design and usage of a semantically annotated three-dimensional reference system for the healthy human body.
An understanding of how the HuBMAP reference atlas might be used to understand human health but also to diagnose and treat disease.
In all the hubbub of the data release, I feel like I might have forgotten to do something for a meeting that’s coming up. Any ideas what that might be?
Sincerely,
I Really Need to Start Writing Things Down
Dear You and Me Both,
It’s possible that you have not yet registered for the September Demo Day being hosted by IU on September 21-22.
If that is true, and you would like to attend Demo Day, please go here to register for your zoom link in order to attend the meeting.
If you would like to see more information about Demo Day, please go here.
Sincerely,
If There's Something Else (that I can’t help you with) I’m only one person you know...
Register for HIVE Demo Day -Submit a Poster or Demo
Registration for the September HuBMAP Demo Day event, taking place on September 21-22, 2020 is now open here. Event information can be found on the website.
There will be an opportunity to showcase your team's work through posters, pre-recorded videos, and live demos during the meeting. Please use this form to submit your posters and pre-recorded demos (videos), and to let us know if you'd like a time slot for a live demo by September 11th. There is not a limit on the number of submissions from one team.
Using Data Science to Map the Entire Human Vasculature
Blood vessels are both the source of life for people, bringing oxygen and nutrients to all living cells, as well as pathways that lead to disease, including coagulopathies in COVID-19, vascular abnormalities in diabetes, and the spread of metastatic cancers. For 2000 years, scientists have been cataloging different parts of the vasculature, but no one has yet connected the dots to show the full network of vessels throughout the body. As a Postdoctoral Fellow in the Department of Intelligent Systems Engineering at Indiana University, Bloomington, you can be the first person in history to map the entire human vasculature using modern data science techniques! You will gain experience in using natural language processing to extract existing knowledge about the vascular system from the biomedical literature, mining biomolecular databases to obtain endothelial cell gene expression profiles, and creating interactive visualizations and anatomical ontology graphs. This is a key part of an ambitious national effort to create a detailed map of all the cells within the human body-the NIH funded Human BioMolecular Atlas Program (HuBMAP).
The position is for 12 months initially and can start as soon as September 2020 (negotiable). The postdoctoral fellow should have a background in human anatomy or pathology, or related fields such as systems biology, cell biology, or radiology.
If you have questions or wish to apply, please contact Prof. Katy Börner, katy@indiana.edu
Developers in need of HIVE infrastructure may request access through the PSC web form, foundhere.
Instructions for using HIVE infrastructure can now be found in the "Quick Links" section of the Collaboration Portal. A direct link to this documentation can be found here. Please report any issues or direct any questions to help@hubmapconsortium.org.
Content Suggestions
The IEC is seeking to collect information of general interest from individual members and groups to share with the rest of the Consortium. Please submit content suggestions by emailing admin@hubmapconsortium.org.
Past Newsletters are available on the Collaboration Portal.
For comments, suggestions about how to improve the HuBMAP Happenings, or questions about the consortium, please contact: help@hubmapconsortium.org
