HUB12

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What and how? Data Management for Bioinformatics

When? Tuesday July 8th 2014, 18:30 - 21:00

Where? Grabengasse 3-5, Building 2170, Groundfloor, Hörsaal 4a

Who? A team of people working at several different life-science organisations within Heidelberg are organising HUB, with your help (just get in touch or add your comments to this page).

Social media

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  • Follow the HUB Twitter account @HUBioinformatic, tweet about us by mentioning the Twitter account name and/or by using the hashtag #hub_hub

Programme

18:30-18:50 Welcome & introduction [presentation] Pierre
18:50-19:00 NGS data management : making (almost) everyone happy [presentation] Charles Girardot (GBCS-EMBL)
19:00-19:15 Ice-breaker [group activity] Iman
19:15-20:30 Tame your Data - Data Management for Bioinformaticians [group activity] Everybody
20:30-20:45 Latest updates on turning HUB into a 'Verein' Everybody
21:00 To the pub (Marstall).

HUB12 Event Report

HUB 12 was held on Tuesday, the 8th of July 2014. We aimed in this meeting to tackle the topic of Data Management, a subject of interests for all researchers in general, and specifically bioinformaticians, who had to deal often with a big amount of data. “Tame you data : data management for bioinformaticians” was the theme of the 12th session of Heidelberg Unseminars in Bioinformatics. More than 25 persons, with expertise ranging from next generation sequencing to large scale image acquisition and analysis, attended the event. Interestingly, among the participants, few people had no experience in bioinformatics which reflects the need and importance of data management in all research areas. The meeting started with a short and general introduction of HUB and its aims, followed by an introduction of HUB 12 program. The program started with a 5 min. talk presented by Charles Girardot, head of the Genome Biology Computational Support, at the European Molecular Biology Laboratory in Heiderlberg. Charles talk titled “NGS data management : making (almost) everyone happy” dealt with his experience in managing large data sets generated mainly by high throughput sequencing experiments. He and his colleagues developed pipelines allowing the follow up of divers experiment types, with a focus on large scale sequencing data, and their associated metadata. The long discussion that followed his talk, specifically regarding files naming, was the perfect kick-off of our meeting on data management. After the talk, we had the first group activity, the ice-breaker session. Here, groups of three were formed to play a small game, related to data management. The game consisted of a simulation of a document search on a computer. One person in the group name a document in his home or work computer and the others have to find the location of the document, following a certain search and find logic (i.e inquiring the document owner, who is simulating his own computer, using for instance linux commands like “ls”, “pwd” …). The main session of HUB 12 started after the ice-breaker. Groups of 4-5 were formed and each group was asked to define 1 to 2 problems in data management. Following that, one person per group exposed the defined problems. Around 10 problems were selected and written on white boards. Then, new groups were formed, always with 4-5 persons, to discuss the identified problems. Again, one person per group exposed the group ideas in tackling the problems and eventually came up with ways to circumvent them or even solutions to them. The problems as well as the discussion drafts can be found down, as image document.

Interestingly, none of the participants have followed a course or a workshop on data management before, including the organizers themselves. This explains the success of HUB 12 and the participants satisfaction. Needless to say that this was due to the enthusiasm of both the organisers and the participants. The logic followed in HUB 12 about data management, whereby participants came up with the problems to discuss and eventually solutions to them, corresponds to the main aim of Unseminars, defined as participant driven meeting.

The last 30 minutes of HUB 12 was reserved for the “Verein” Committee. The committee voted 3 clauses and presented for the participants the reason behind establishing HUB as a “Verein”.

By the end, we kept interacting but this time around a beer in the Altstat of Heidelberg, where people enhanced their network of bioinformaticians.

Problems exposed and associated discussions

Participants

Please add yourself to the list of participants by editing the list below.

List of participants:

  1. Matthew Betts
  2. Th. Soldatos
  3. Adam Gristwood
  4. Pierre Khoueiry
  5. Melanie Schneider
  6. Iman Meziane
  7. Holger Dinkel
  8. Jean-Karim Heriche
  9. Toby J Mathieson
  10. Thomas Schwarzl
  11. Xiaofeng Yu
  12. Neil Bruce
  13. Guangyou Duan
  14. Janos Binder
  15. Aidan Budd
  16. Octavio Espinosa
  17. Agnes Hotz-Wagenblatt
  18. Thomas Wolf
  19. Juan Mateo
  20. Lucas Czech
  21. Alvaro Mateos Gil (around 20.20h)
  22. Holger Franken
  23. Cyril MONGIS
  24. Esther Schmidt
  25. Manjeet Kumar
  26. Markus Seiler
  27. Laura Howes

Task List

A list of tasks that need to be done on or before the meeting day. Just sign your name to say that you'll do a task, and the same again when the task is done.

To arrange before evening Person responsible Done
Room booking Jon Fuller Done - Horsaal 04a
List of registered people Iman Meziane
Ordering beer for evening Matthew Betts Current info is that beer is still not allowed in uni rooms.
Drinking Water and Cups Florian
A4 signs in plastic envelopes to help people find the room Pierre Khoueiry
Treasury duties Matthew Betts
Create the poster Matthew Betts? Done
Print and display poster where relevant
  • BioQuant: Matthew betts
  • EMBL: Pierre Khoueiry
  • DKFZ: Iman Meziane
  • Neuenheim Mensa: Iman Meziane
  • Uni HD: UniBib Neuenheim, Lehrstuhl Informatik: Mel
  • HITS: Jon Fuller
  • ZMBH: Matthew Betts (via Christine Glaesser)
  • ...
  • Done yes
  • Done yes
  • Done ?
  • Done ?
  • Done yes
  • Done ?
  • Done yes
  • Done ?
Advertise on bio-it.embl.de Holger Done
Advertise on linkedin Florian Done
Projector Tom Done
Providing Pens, Magic small sticky board, sticker for people to write their name on Holger
Prepare slides for HUB introduction, HUB program and Introduce them Pierre Khoueiry
Send reminder email Pierre Khoueiry


To do on the evening Person responsible Done
Open the room Xiaofeng/Matt
Arrange room (tables/chairs) Pierre Khoueiry
Hang up signs to the room Pierre Khoueiry
Setup and welcome attendees Mel
Setup AV equipment Pierre Khoueiry
MC/Chair the meeting Aidan [but only if noone else wants to do it!]
Explain, prior to each step, what has to be done and how to do it Florian
Chair the warmup Aidan [but only if noone else wants to do it!]
Time-Keeping (Terminator) Florian
Tidy and close room Xiaofeng

Links to minutes of relevant planning meetings

Friday 13th June 2014