Can you provide us with a concise list of the working groups so I can decide which ones I should join and which ones I should delegate to my underlings - I mean colleagues, please?
Sincerely,
New to the HuBMAP game
Dear Welcome Player 1,
Certainly! We are always happy to have representation from all of the groups, so if you can’t join, we would be happy to have your colleagues.
Here are the current working groups:
Collaborative Projects Planningand Publications – third Tuesday of the month at 1:00pm
Communications and Engagement – last Thursday of the month at 4:00pm
Integrated Data Analysis and Interpretation – every other Wednesday at 10:00am
Data Coordination - TBD
Policies – first Wednesday of the month at 3:00pm
If you would like to join any or all of these groups, please sign up in this sheet, or email me and I’ll add you to the list!
Sincerely,
Space is limited, so join now!
*All times are Eastern
RFA-MH-21-140 BRAIN Initiative Cell Census Network (BICCN) Scalable Technologies and Tools for Brain Cell Census
The BICCN scalable tools RFA has been reissued. Link to grant information here.
Purpose: This Funding Opportunity Announcement (FOA) intends to accelerate the use of scalable technologies and tools to enhance brain cell census research, including the development of technology platforms and/or resources and the generation of spatiotemporal cell census data and/or resources. Applications are expected to address limitations and gaps of existing technologies/tools as a benchmark against which the improvements or competitive advantages of the proposed ones will be measured. The improvements include throughput, sensitivity, selectivity, scalability, spatiotemporal resolution and reproducibility in cell atlas analyses. The projects funded under this FOA will align with the overarching goals of the BRAIN Initiative Cell Census Network (BICCN) and are expected to enable the generation of a large amount of cell census data using the proposed technologies or via collaboration with the BICCN.
Application Due Date: March 10, 2021
Cell Atlas Curation
Working Group
The next Cell Atlas Curation Working Group call will be held on November 3 at 10AM EST.
Agenda for 11/3/2020 Review: At the last meeting, we discussed steps for integrating CEDAR into HuBMAP metadata forms with dropdown menus to constrain terms.
Next steps from the last meeting:
Step 1: Chris- Create interim metadata forms with dropdowns to constrain input.
Step 2: Desired feature improvements for CEDAR will be written up and Mark & Chris will seek funding to implement these improvements.
Step 3: Once CEDAR has the desired ease-of-use, users could populate metadata forms directly in CEDAR.
Assigned to Milen: Clinical terms used by Enrique: Milen will put them in the Bioportal Ontology Recommender to find appropriate ontologies.
Discussion topics:
CB has re-created several metadata forms in Excel with dropdowns to constrain terms. RegEx can be implemented in Excel spreadsheets to constrain patterns
Chuck McCallum is working on transforming metadata schema in Github into table-format with built-in validation for terms & constrained patterns. Waiting to find out if his tables will accommodate dropdowns.
Milen’s work on searching for clinical terms using the Bioportal Ontology Recommender
RFAs
3D Technologies to Accelerate HTAN Atlas Building Efforts
For critical applications such as emergency planning and epidemiology, public safety responders may need access to sensitive data. But, sharing sensitive personal data with external analysts can compromise the privacy of individuals in the data. Even if data is anonymized, malicious parties may be able to link the anonymized records with third-party data and re-identify individuals. And, when data has both geographical and time information, the risk of re-identification is significantly increased.
Challenge Details
The Differential Privacy Temporal Map Challenge is a series of contests, with prize awards totaling up to $276,000 for excellence in formal data privacy.
The contests will include a series of privacy algorithm sprints:
People who don't understand the difference between etymology and entomology bug me in ways I can't seem to put into words.
HIVE Infrastructure
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
