AIDRD Hackathon 2020

 Cancellation (AIDRD Hackathon 2020)

    We decided the cancellation of the AIDRD Hackathon 2020 in consideration of the current situation surrounding the COVID-19 outbreak. We apologize for any inconvenience to everyone who has already registered this event.

Overview

The Alliance of International Developers for Rare Diseases (AIDRD) Hackathon 2020 will be held from March 9th through 12th, 2020 in Kashiwa, Japan (1 hour train from Tokyo). The focus of this hackathon is bringing together developers from around the world to help address three key challenges for rare disease diagnosis:

  1. The use and interoperability of rare disease differential diagnosis tools.

    Potential focus: interoperability between diagnosis suggestion tools, building on the recent release of Phenopackets, to make it easier for platforms to use adopt diagnosis suggestion tools and easier for researchers to benchmark and compare these tools.

  2. The collection and interoperability of family history information.

    Potential focus: advance the development of the GA4GH pedigree standard by piloting the exchange of pedigree data between several key projects.

  3. Patient access to information about rare disease specialists.

    Potential focus: explore and evaluate approaches to specialist curation and prediction, such as those used by rarediseasedoctors.org.

Schedule

  • Symposium: March 9, 2020
  • Hackathon: March 9-12, 2020

On the first day, March 9 (Mon), we will have a public symposium with presentations from invitees. From the 9th through the 12th, a hackathon for development and discussions will be held. On the last day, March 12th (Thu), we will have a session with group presentations summarizing our work.

Sponsors

ROIS-DS
Joint Support-Center for Data Science Research, Research Organization of Information and Systems
NBDC
National Bioscience Database Center
DBCLS
Database Center for Life Science


Daily Program

The AIDRD Hackathon 2020 will be held from March 9 through March 12.

9th 10th 11th 12th
Mon Tue Wed Thu
9:30 - 10:00 Registration 9:00 - 13:00 Hackathon 9:00 - 13:00 Hackathon 9:00 - 12:00 Hackathon
10:00 - 12:30 Symposium 13:00 - 14:00 Lunch 13:00 - 14:00 Lunch 12:00 - 13:00 Lunch
12:30 - 14:00 Lunch 14:00 - 18:00 Hackathon 14:00 - 18:00 Hackathon 13:00 - 15:00 Writing
14:00 - 14:40 Symposium 18:00 - 20:00 Dinner 18:00 - 20:00 Dinner 15:00 - 16:00 Group presentations
14:40 - 18:00 Hackathon 20:00 - Hall is open 20:00 - Hall is open 16:00 Event ends
19:00 - 21:00 Reception dinner
21:00 - Hall is open

Symposium

Public symposium will be held in Kashiwa on March 9 (Mon)

  • 9:30 Registration opens
  • Opening & Session 1
  • 10:00-10:10Introduction to the AIDRD Hackathon 2020
    Toyofumi Fujiwara Database Center for Life Science(DBCLS), Japan
    10:10-10:30TBD
    Orion Buske PhenoTips, Canada
    10:30-10:50TBD
    Natasha Singh Children's Hospital of Philadelphia, USA
    10:50-11:10TBD
    Alejandro Metke Jimenez CSIRO - The Australian e-Health Research Centre, Australia
  • Coffee Break
  • Session 2
  • 11:30-11:50TBD
    Jules Jacobsen Queen Mary University of London, UK
    11:50-12:10Towards a Directory of Rare Disease Specialists: Identifying Experts from Publication History
    Zihan Wang Stanford University, USA
    12:10-12:20TBD
    Kota Ninomiya National institute of Public Health, Japan
    12:20-12:30TBD
    Shinya Oki Kyushu University, Japan
  • Lunch
  • Keynote
  • 14:00-14:40TBD
    Cornelius Boerkoel University of British Columbia, Canada

Hackathon

During the hackathon, group activities will be recorded in the following Google Docs. Please log your activities as much as possible.

  • Differential diagnosis team: https://***
  • Family history team: https://***
  • Rare disease specialist team: https://***

On the last day, March 12th (Thu), we will have a session with group presentations. Please summarize your group activities in the following Google Slides.

  • Differential diagnosis team: https://***
  • Family history team: https://***
  • Rare disease specialist team: https://***


Venue

We are very pleased to wellcome you to Kashiwanoha city for the venue of AIDRD Hackathon 2020. Kashiwanoha city is located about 30 km to the east of central Tokyo. It is a newly and rapidly developed area as a smart city by a collaboration of Mitsui Group., Hitachi, and University of Tokyo. Kashiwanoha is directly connected to Akihabara, the symbolic area of electronic stuff, by the Tsukuba express railroad line, which will take 30 ~ 40 minutes. In the city, the venue of AIDRD Hackathon 2020 is the building of University of Tokyo Kashiwanoha-campus Station Satellite, which is right next to the Kashiwanoha-campus station.

Symposium 7F Room 701
Hackathon 6F Room 605
6F Room 604 (for small meetings)


Building of University of Tokyo Kashiwanoha-campus Station Satellite

Hotel

For convenience of the participants, we have reserved some rooms in Mitsui Garden Hotel Kashiwanoha. It is located right next to the venue. If you want to stay at the hotel, please specify it when you make your registration. For those who want to find their lodge themselves, it is recommended to find one near a station of the Tsukuba express line.

Mitsui Garden Hotel Kashiwanoha

Reception dinner

There will be a welcome reception dinner in the evening of 9th, at the Japanese restaurant Ryoshi-no-sato which is 2 minutes away from the Mitsui Garden Hotel Kashiwanoha. Thanks to generous financial support from ROIS, each attendee only has to pay 2,500 JPY, which is part of food and drink. Please prepare the exact amount in cash for your on-site registration (to avoid congestion at the registration).

Japanese restaurant Ryoshi-no-sato

Access from Narita Airport

  • Route 1) Direct Express Bus (most convenient but operated only two times a day)
    1. Take the Matsudo and Kashiwa Line of Narita Airport Express Bus to Kashiwanoha-campus (1.2 hours).
      (Get off at the stop of Kashiwanoha-campus, and the venue will be in front of you.)
  • Route 2) Limousine Bus - Tsukuba express (recommended If you have heavy bags)
    1. Take the Airport Limousine Bus to Yashio Station North Exit (1.5 hours)
    2. Take the Tsukuba express line and get off at Kashiwanoha-campus (18 minutes)
    3. Take the West exit (left hand side) out, and you will see Mitsui Garden Hotel in 150m
  • Route 3) Skyliner - JR - Tsukuba express (recommended if you prefer trains than buses)
    1. Take Keisei Skyliner to Nippori
    2. Change to the JR line and go to Akihabara
    3. Change to the Tsukuba express line and get off at Kashiwanoha-campus
    4. Take the West exit (left hand side) out, and you will see Mitsui Garden Hotel in 150m


Access from Haneda Airport

  • Limousine Bus
    1. Take the Keikyu Limousine Bus to Kashiwanoha-campus Station West Exit (1.5 hours)
    2. Find Mitsui Garden Hotel in 50m


Registration

Registration closes: 14 February, 2020 21 February, 2020

After completing your registration, a confirmation mail will be delivered to your mail address. The confirmation mail will be sent in HTML, which includes a link to edit your registration. So, please be sure to receive the confirmation mail in HTML. Otherwise, you will not be able to edit it afterward.




Attendees

List of attendees of the AIDRD Hackathon 2020

NameProjectAffiliationProfile
Alejandro Metke JimenezAustralian GenomicsCSIRO - The Australian e-Health Research Centre, Australia
Atsuko YamaguchiSPARQL BuilderDatabase Center for Life Science (DBCLS), ROIS, JapanLinkedIn
Cornelius BoerkoelDeep Phenotyping and DiagnosticsUniversity of British Columbia, Canada
Hiroyuki MishimaWorkflow developmentNagasaki University, JapanLinkedIn
Jules JacobsenPhenopacketsQueen Mary University of London, UK
Keiko SakumaDatabase Center for Life Science (DBCLS), ROIS, Japan
Kota NinomiyaNational institute of Public Health, Japan
Natasha SinghKids First DRCChildren's Hospital of Philadelphia, USA
Orion BuskePhenoTipsPhenoTips, CanadaLinkedIn
Riu YamashitaNational Cancer Center Hospital East, Japan
Ryohji TakanoFujitsu Limited, Japan
Ryota Yamadafuku Inc., JapanTwitter
Sadahiro KumagaiIRUDHitachi, Ltd., Japan
Sei MiyamotoCancer genomic medicine (MHLW)Fujitsu Ltd., Japan
Shinya IimuraTakeda Pharmaceutical Company Limited, Japan
Shinya OkiChIP-AtlasKyushu University, JapanResearchGate
Soichi OgishimaHPOToMMo, Tohoku University, Japan
Susumu GotojPOSTDatabase Center for Life Science (DBCLS), ROIS, JapanLinkedIn
Takuya WadaAstellas Pharma Inc., Japan
Terue TakatsukiDatabase Center for Life Science (DBCLS), ROIS, Japan
Toyofumi FujiwaraPubCaseFinderDatabase Center for Life Science (DBCLS), ROIS, Japan
Yuki Chidafuku Inc., Japan
Zihan WangStanford University, USA


About

AIDRD (Alliance of International Developers for Rare Diseases) organizes events to promote collaboration among developers of different countries for interoperability of rare disease resources and tools.

In order to foster collaborations between developers around the world, including Asia and Oceania, AIDRD organizes multi-day events where developers interact closely on shared projects. The growth of life science hackathons in Japan and Europe has shown that this model is effective at promoting new collaborations.

AIDRD seeks to bring together diverse developers from around the world. In addition to academic developers, AIDRD encourages the attendance of developers in industry, including pharmaceutical companies, DNA testing companies, and EHR vendors. Moreover, AIDRD encourages not only developers in Europe and the United States but also developers in Asia and Oceania, and organized AIDRD Hackathon 2020 in Japan to improve access from these areas.

Committee

NameAffiliationResponsibility
Toyofumi FujiwaraDatabase Center for Life Science (DBCLS), ROIS, JapanOrganizer
Orion BuskePhenoTips, CanadaOrganizer
Atsuko YamaguchiDatabase Center for Life Science (DBCLS), ROIS, JapanOrganizer
Hiroyuki MishimaNagasaki University, JapanOrganizer
Keiko SakumaDatabase Center for Life Science (DBCLS), ROIS, JapanOrganizer
Terue TakatsukiDatabase Center for Life Science (DBCLS), ROIS, JapanOrganizer
Susumu GotoDatabase Center for Life Science (DBCLS), ROIS, JapanOrganizer