V(D)J recombinations in lymphocytes are essential for immunological diversity. They are also useful markers of pathologies, and in leukemia, are used to quantify the minimal residual disease during patient follow-up. High-throughput sequencing (NGS/HTS) now enables the deep sequencing of lymphoid populations. With dedicated AIRR-Seq/Rep-Seq bioinformatics methods and software, clinicians and researchers can now qualify and sometimes quantify the heterogeneity of these lymphoid populations.
The Vidjil platform is used in routine clinical practice in hospitals around the world, in particular for the diagnosis of patients suffering Acute Lymphoblastic Leukemia (ALL). More than 8,000 samples of ALL patients were analyzed with Vidjil since 2015. Vidjil is also used in several studies on hemopathies (ALL, CLL, lymphomas, WM...) as well as on immunology topics involving T-cell or B-cell repertoires.
This workshop is intended for users and developers of Vidjil, to discover the platform, share experience, to raise questions and possibly to set up new collaborations between biologists and bioinformaticians. Due to outbreak of Covid-19, we will organize a full workshop in 2022 with more talks. This 2020 special edition will allow everyone to have a introductive tutorial/training with practical hands-on sessions. The Vidjil Workshop takes place every 18 months. The previous workshops (2016, 2017, 2019) gathered at each edition between 30 and 40 scientists from 5 to 7 countries.
|10:00 – 11:30||
Remote talks: Algorithmics and bioinformatics, an introduction to the Vidjil platform
|11:30 – 13:00||Remote Practical Session 1
|15:00 – 18:00||Remote Practical Session 2|
|10:30 – 13:00||Session pratique 3|
|14:00 – 16:30||Discussion entre laboratoires utilisateurs|
There are thus two options to participate to the practical sessions, that will have the same content. The participants can work on their computer either remotely (Monday) or in Paris, by bringing own's laptop (Tuesday). You can also upload your own NGS data (fasta / fastq / fastq.gz files), into user accounts on app.vidjil.org before the workshop. We also provide public test data for the people who do not currently have their own NGS Rep-Seq data.
The workshop is sponsored by the VidjilNet consortium at Inria and the GBMHM. There is no registration fee, but, for organization purposes, we ask you to register. To register, please copy, paste and fill the following lines into an email to Florian, Marc, Mathieu and Mikaël :
================================================ First name: Last name: Function: Laboratory/hospital: City: Country: I will be present: [ ] Monday 28 September, remotely, 10:00 – 11:00, for the general introduction [ ] Monday 28 September, remotely, for the rest of the day (formation/tutorial) My usage of Vidjil: [ ] I use Vidjil at least once a month [ ] I use Vidjil occasionnaly [ ] I am a new user or I don't use Vidjil ================================================
The registration for the Tuesday (in Paris) is closed. It is still possible to register for the remote workshop on Monday.
If a physical workshop is possible, it will take place in Paris, in the Hôpital Saint Louis, very close to the Gare de l'Est (and Gare du Nord) train stations.