Sharing and Curating Open Data in Musculoskeletal Imaging Research

2nd workshop of the Open and Reproducible Musculoskeletal Imaging Research (ORMIR) Community

Main financial support by the Swiss National Science Foundation (SNSF)
Sponsors: Balgrist Campus, Schulthess Klinik, Zurich Tourism Office

Dates: January 15-18, 2024

Venues in Zurich (Switzerland):

• Balgrist Campus, Lengghalde 5
• Schulthess Klinik, Lengghalde 2

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In this page, you will find:

• Program
  • Working groups
  • Invited speakers
  • Day 1: Presentations
• Participants
• Staying, eating, and travelling
  • Accommodation, Meals, Public transportation, Travel reimbursements
• More
  • Accepted proposal, Final report, Final budget, Photos

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Program

Working groups

• Metadata standardization for (MSK)BIDS (now ORMIR-MIDS)
  • Group presentation: here
  • GitHub repository: ORMIR-MIDS
  • Coordinators: Gianluca Iori and Donnie Cameron
• Guidelines for data sharing
  • GitHub repository: ORMIR data guidelines
  • Documentation: document and spreadsheet
  • Coordinator: Sarah Manske
• Biomechanics
  • Group presentation: here
  • GitHub repository: HipPyFemur
  • Coordinator: Lorenzo Grassi
• Data format converters (ScancoIO)
  • GitHub repository: vtkbone
  • Coordinator: Matthias Walle

Invited speakers

• Ricard Martínez (University of Valencia) - Data Sharing for the CHAIMELEON project (video)
• Tim Smith (CERN) - Open is not enough (video)
• Katrin Crameri (Swiss Institute of Bioinformatics) and Patrick Hirschi (University Hospital Zurich) - The SPHN data-enabling framework: From routinely collected healthcare to FAIR research data (video)

Day 1: Presentations

• Serena Bonaretti: Welcome!
• Sarah Manske: Developing a repository for metadata: the SPECTRA experience
• Francesco Santini: Collaborative lifelong learning for MR image segmentation with Dafne: a reproducible research project

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Participants

• Andrea Cina
• Andrew Burghardt
• Andy Kin On Wong
• Bryn Matheson
• Danielle Whittier
• Donnie Cameron
• Fabio Galbusera
• Francesco Chiumento
• Francesco Santini
• Fulvia Taddei
• Gianluca Iori
• Gianluigi Crimi
• Giulia Fraterrigo
• Jilmen Quintiens
• Jukka Hirvasniemi
• Kathryn Stok
• Lorenzo Grassi
• Maria Monzon Ronda
• Mariska Wesseling
• Martino Pani
• Matthias Walle
• Sabine Matuschik
• Sarah Manske
• Serena Bonaretti
• Simone Pancioni
• Vincent Stadelmann
• Youngjun Lee

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Staying, eating, and travelling

Accommodation

• Where: Hotel Hottingen, Hottingerstrasse 31, 8032 Zurich, Switzerland
• Breakfast, WiFi, and City Tax are included
• Check in: Monday, January 15, 2024 from 3pm
• Check out: Thursday, January 18, 2024 until 11am
• Number of nights: 3
• The hotel provides luggage deposit

Meals

• Breakfast: at Hotel Hottingen
• Lunch:
  • Monday: Balgrist Canteen
  • Tuesday: Catered at Schulthess
  • Wednesday: Balgrist Canteen
  • Thursday: EPI Park, Südstrasse 120, 8008 Zürich
• Dinner:
  • Monday: Co Chin Chin Brasserie, Wiesenstrasse 1, 8008 Zürich
    
  • Tuesday: Zunfthaus Zur Waag, Münsterhof 8, 8001 Zürich
    
  • Wednesday: Le Cèdre, Badenerstrasse 78, 8004 Zürich
    

Public transportation

• Public transportation in Switzerland is very reliable. You can plan your trips at sbb.ch or you can download and install the SBB app
• Convenient vocabulary and abbreviations: Flughafen = airport; Banhof = train station; Hauptbanhof (abbreviated HB) = main train station; Bahnhofplatz (abbreviated Bfpl) = train station square
• You will have to pay yourself the trip from the airport to the hotel and/or Balgrist Campus (about 7 CHF)
• At Balgrist Campus, you will find the Zurich Card, which is a 72 hour ticket that you can use for any transportation in Zurich (including the trip back to the airport) and fantastic benefits. Don't forget to print it the first time you use it and to always keep it with you!
• Reaching Hotel Hottinger (Hottingerstrasse 31): From the airport (Zürich Flughafen), take any train to the main train station (Zürich HB). Exit the train station on the right side, and get the tram 3 direction Zürich, Klusplatz. Get off at the stop Hottingerplatz and walk to the hotel (2 min)
• Reaching Balgrist Campus (Lengghalde 5) and Schulthess Klinik (Lengghalde 2): From your hotel, walk to the tram stop Kreuzplatz (10 min). Take tram 11 direction Zürich, Rehalp or tram S18 directions Forch or Esslingen and get off at the stop Balgrist (left map). Then:
  • To Balgrist Campus (red path on right map) : Walk to the Balgrist Hospital main entrance (1 min), walk through the main building hall, and exit to the other side. Balgrist Campus will be in front of you!
  • To Schulthess Klinik (yellow path on right map): Walk the downhill street to the Klinik (5 min)
    

Travel reimbursements

• Participants from Europe (except Switzerland) will receive 50CHF trip reimbursement
• Participants from other continents will receive 300CHF trip reimbursement
• The reimbursement form will be available after the workshop

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More

Accepted proposal

Find the accepted SNSF grant proposal here

Final report

Read the report to the Swiss National Science Foundation. You can follow the workshop outcomes here

Final budget

Find our final budget here

Photos

Working!

Guest speakers: Ricard Martínez, Tim Smith, and Katrin Crameri and Patrick Hirschi

Having fun!