HuBMAP Y4:Q3 Demo Day


March 28-29, 2022


HuBMAP Demo Day Group Photo


Cook Center, Maxwell Hall, Indiana University, Bloomington, IN 47405

Goals for the Meeting:

Registration for the event

Registration is required and attendance is limited to 100 people. Please register here

Covid-19 vaccination requirements for attendance

All Indiana University students, faculty and staff are required to have a COVID-19 vaccine and be fully vaccinated or have an approved exemption before coming to campus. Vaccination is strongly encouraged for campus visitors. Indiana University and Monroe County have recently lifted the mask mandate and masks are optional.

Is remote attendance possible?

Currently, the event is planned as an in person event with some sections being streamed. We will monitor the situation and adjust plans as needed. We recognize that some institutions may not allow travel and that the situation continues to evolve.

Local Organizers from MC-IU Team

Members of the Cyberinfrastructure for Network Science Center (CNS) at the Luddy School of Informatics, Computing, and Engineering, Indiana University.

Portrait: Katy Börner

Katy Börner

Director, CI for Network Science Center (CNS)

Portrait: Lisel Record

Lisel Record

CNS Associate Director

Portrait: Matthew Martindale

Matthew Martindale

CNS Center Assistant

Portrait: Medina Sydykanova

Medina Sydykanova

CNS Project Support Specialist

Portrait: Medina Sydykanova

Andreas Bueckle

CNS Research Scientist/Lead


Bloomington, Indiana, is in the Eastern Time Zone (Eastern Daylight)

Sunday, March 27, 2022

5:00pm-7:00pm Happy Hour at Irish Lion

Monday, March 28, 2022

09:00am-10:00am Brief Welcome by Organizers and NIH
Updates from HIVE teams (10mins each, 10 min Q&A)
An Open SciTech Talk recorded and streamed live
10:00am-11:15am Breakout Session 1: Current Challenges and Opportunities
  • Data Ingest (Jonathan Silverstein/Phil Blood)
  • Organ Pages/Atlas References (Nils Gehlenborg/Katy Borner)
  • Single Cell Segmentation and Annotation (Matt Ruffalo)
  • Training and Engagement Work Session: HuBMAP Use Cases (Robin Scibek)
11:15am-12:00pm Report Back (10mins each)
12:00pm-1:30pm Lunch on your own at local restaurants
1:30pm-2:45pm Breakout Session 2: Agree on Specifications for Pilot Projects
2:45pm-3:30pm Report Back (15mins each)
3:30pm-4:00pm Coffee
4:00pm-6:00pm Open for small groups to work together
  • Open laptops, poster presentations and discussions, code together!
  • Take this time to meet with others
  • Space will be provided
4:30pm-5:15pm Tour for Luddy Hall Amatria
Meet in the Grand Hall and walk to Luddy together
6:00pm Dinner on your own at local restaurants
Evening PI Gathering (by invitation)
Federal Room, Indiana Memorial Union

Tuesday, March 29, 2022

09:00am-10:15am Breakout Session 3: Agree on Timelines for Pilot Projects
10:15am-11:00pm Report Back (15mins each)
11:00am-12:00pm TMCs/RTIs Present 3D Maps and Explain What Tech Support is Required to Publish the Maps (10mins each, 10 min Q&A)
  • Kidney Maps (Jeff Spraggins, TMC-VU)
  • 2/3D Lung and/or Kidney Maps (Sanjay Jain, TMC-UCSD)
  • Tissue Maps by Light Sheet Microscopy (Seth Currlin, TMC-UFL)
  • Skin Maps (Fiona Ginty, RTI-GE)
  • Mapping Multicellular Neighborhoods Across the Intestine (John Hickey, TMC-Stanford)
12:00pm-12:05pm Announce RUI Contest Winners
12:05pm-1:30pm Lunch on your own at local restaurants
1:30pm-2:30pm Breakout Session 4: Suggested Improvements for Y5-8
  • Experimental Design--What (non-)HuBMAP data is most useful for Atlas construction? (Rahul Satija/Jonathan Silverstein)
  • Algorithm Comparisons--Which cell segmentation/annotation, 3D reconstruction, and spatial search algorithms are best? (Ziv Bar-Joseph/Nils Gehlenborg)
  • Connecting to Other Atlas Efforts--How to use other single-cell references and experimental data for HuBMAP Atlas construction and usage? (Phil Blood/Katy Borner)
  • Training and Engagement Work Session: HuBMAP Use Cases (Robin Scibek)
2:30pm-2:45pm Report Back (15 mins each)
2:45pm-3:00pm Break
3:00pm-4:00pm PI Meeting
4:00pm Adjourn

Social Media

HuBMAP twitter feed: @_hubmap
Hashtag: #HuBMAP


Event organization is funded by NIH Award OT2OD026671 and the NIH Common Fund.

Contact Us

Matthew Martindale
Cyberinfrastructure for Network Science (CNS) Center Assistant
Indiana University Luddy School of Informatics, Computing, and Engineering

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