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What and how? Data Management for Bioinformatics
When? Tuesday July 8th 2014, 18:30 - 21:00
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).
- LinkedIn: To keep track of people you've met at HUB, join the HUB LinkedIn group
- Follow the HUB Twitter account @HUBioinformatic, tweet about us by mentioning the Twitter account name and/or by using the hashtag #hub_hub
|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
Please add yourself to the list of participants by editing the list below.
List of participants:
- Matthew Betts
- Th. Soldatos
- Adam Gristwood
- Pierre Khoueiry
- Melanie Schneider
- Iman Meziane
- Holger Dinkel
- Jean-Karim Heriche
- Toby J Mathieson
- Thomas Schwarzl
- Xiaofeng Yu
- Neil Bruce
- Guangyou Duan
- Janos Binder
- Aidan Budd
- Octavio Espinosa
- Agnes Hotz-Wagenblatt
- Thomas Wolf
- Juan Mateo
- Lucas Czech
- Alvaro Mateos Gil (around 20.20h)
- Holger Franken
- Cyril MONGIS
- Esther Schmidt
- Manjeet Kumar
- Markus Seiler
- Laura Howes
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|
|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||
|Advertise on bio-it.embl.de||Holger||Done|
|Advertise on linkedin||Florian||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!]|
|Tidy and close room||Xiaofeng|