Dena took some much needed time off to recharge last week, so we are channeling that vibe for this week's image of the week by including this soothing photo for you to enjoy!
Disclaimer: no persons traveled to take this photo.
Dear Dena
Dear Dena,
I just heard that Demo Day is coming up, but no one told me about it! What do I have to do to prepare?! Are there due dates?! Anything that I need to upload?!
Help me, Dena-Wan; you're my only hope!
Dear Leia,
Don't fret; the Force is with you.
Yes, to all the above! Demo Day (i.e. Data Analysis and Visualization Day) is December 14-15, 2020 to be exact.
Here is our list of things you should do - including dates to prepare them by:
By December 1: edit the list of posters and demos and add details of any poster presentations or demos from your group.
By December 8: please let Robin and Dena know if you have any specific requests for your presentation or the posters / demo session (e.g. you want to live stream a demo from your lab).
Zoom coordinates for the members-only sessions will be sent to all funded components in the week prior to the meeting.
As always, if you need any help, please do not hesitate to ask.
May the Force be with you!
Hacking the Kidney: Identify Glomeruli in Human Kidney Tissue Images
Your challenge is to detect functional tissue units (FTUs) across different tissue preparation pipelines. An FTU is defined as a “three-dimensional block of cells centered around a capillary, such that each cell in this block is within diffusion distance from any other cell in the same block” (de Bono, 2013). The goal of this competition is the implementation of a successful and robust glomeruli FTU detector.
There are two new exciting funding opportunities within HuBMAP:
HuBMAP Jumpstart Program
HuBMAP Underrepresented/Minority Student Internship Program
The Jumpstart program is designed to enable junior investigators, who are already part of HuBMAP, to work on small projects that align with the overall goals of the program. Completed applications will be accepted through December 15. Please return completed applications to jumpstartapply@hubmapconsortium.org.
The Underrepresented/Minority Student Internship Program endeavors to provide underrepresented and minority undergraduate students (as defined by NIH) opportunities to undertake mentored scientific research in an established HuBMAP Lab. For HuBMAP Labs interested in mentoring student(s) in their respective lab please complete the expression of interest form and return it to internshipapply@hubmapconsortium.org by December 1.
Additional information about both of these programs can be found on the Member Portal.
New NCI Innovation Lab: Modeling Emergent Cellular Behavior in Cancer
Are you interested in moving past cataloging cell types to understand how cell states interact to drive tumor behavior?
Join us for a 5-day Innovation Lab to meet new collaborators, ideate new projects, receive real-time feedback and contribute to where this important field is headed.
The virtual lab will be February 25-26 and March 1-2 and 5, 2021; participation via application.
Investigators with independent appointments are encouraged to apply.
Lab mentors: Manu Platt (Georgia Tech), Dana Pe’er (MSKCC), Zev Gartner (UCSF), Deborah Gordon (Stanford), Claire Tomlin (Berkeley)
Visit the Member Portal for additional detail about each working group and to sign up.
Working Group co-chairs will be presenting updated working group charters at the upcoming Steering Committee meeting on December 7. These presentations will outline working group goals and activities for the future.
John Marioni and Long Cai have a preprint manuscript describing how to integrate data from scRNA-seq and seqFISH assays. This is in the context of the mouse embryo, but it provides guidelines for similar types of analyses that could be done on HuBMAP tissues.
As we approach the winter break, please note that the HuBMAP help desk will be operating on reduced hours so our team can celebrate the holidays and have some time to recharge.
You can still send in questions and we will respond to them, however our response time will likely be slower than normal.
Dates for reduced hours included:
December 24 - January 3.
Data Analysis and Visualization Day: December 14-15
See this week's "Dear Dena' for all details, including important deadlines and links!
Developers in need of HIVE infrastructure may request access through the PSC web form, found here.
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 foundhere. Please report any issues or direct any questions tohelp@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
