Events

During this 3-day course, attendees will learn basic techniques for modeling of biochemical networks including data access and storage due to the FAIR principles. The first day introduces principles of stoichiometric and constraint-based modeling coupled with hands on exercises using CellNetAnalyzer. The second day continues with kinetic modeling techniques which will be illustrated and exercised with COPASI. The third day SABIO-RK is used as a resource for kinetic data and FAIRDOM Hub/SEEK is ...

Our 2018 DigiSal project meeting is held as a satellite meeting of Digital Life 2018 (https://digitallifenorway.org/arrangementer/digitallife-2018).

Most of DS18 will be spent on breakout sessions to work on upcoming publications. Task leaders will prepare:

• Abstracts to DLN18. (Deadline was 15 Feb.) Presenting DigiSal progress here rather than at DS18 frees up time for the paper preparation sessions.

• Identify two papers in preparation, which will be worked on at DS18: Title, first and ...

Abstracts and posters from DigiSal for Digital Life 2018.

We are excited to announce our 2017 SynBio Data Management Training Day. The event is co-located with Synthetic Biology UK, in Manchester. The venue will be the Manchester Institute for Biotechnology (http://www.mib.ac.uk/contact/).

Topics that will be covered include

• Model management in FAIRDOMHub
• Publishing using FAIRDOMHub
• Samples in FAIRODMHub

On top of this we will have talks about general data management using FAIRDOM, and also smart publications.

Participation is free. We have limited ...

Target audience: Wet-lab scientists and people dealing with experimental and/or clinical data for research

Topics include:

• Best practice data structuring (spreadsheets) for experimental and (clinical) samples data
• Comprehensive and unambiguous data description and annotation
• Standard formats and terminologies for data and metadata
• Guidelines for reporting data (Minimum information standards)
• Annotation tools (e.g. RightField: http://www.rightfield.org.uk)
• Using SEEK & FAIRDOMhub ...

The meeting will provide a great opportunity for discussion between modellers, experimentalists and clinicians and to organize and harmonize our future work within the LiSyM network on the grassroot level.

All PhD students as well as all PostDocs of the LiSyM network are kindly requested to register by February 1st

This event is a jointly organized Data Management PALs Meeting that involves PALs from the German LiSyM (Liver Systems Medicine) network and from the ERASysAPP (ERA-Net for Systems Biology Applications) initiative. PALs (Project Area Liaisons) are the front line experts of the data management teams of these projects. They act as data management advocates and help gathering user requirements and testing potential data management solutions. An important part of the meeting will be to gather the ...

Good data and model management improves the longevity and impact of your interdisciplinary research. FAIRDOM offers software and expertise to support you in better managing your interdisciplinary life-science projects, particularly in systems and synthetic biology. If you have never heard of data and model management, or are curious about it, or you are an expert keen to exchange ideas, our user meeting is the place for you! At the meeting you can

• Learn why data and model management is important, ...

Approximate dates of plant growth and harvesting by Sarah Hodge and Andrew Millar, University of Edinburgh

This is just a placeholder, to be edited

Here we collect all the presentations, hands on instructions and documentation for Kinetics on the move Workshop on Data for Computational Modeling

The second project review meeting took place on May 24-25, 2016, at the University of Luxembourg, Luxembourg. This was a theory meeting between the team members to discuss research progress and plans for the project.

FAIRDOM team is inviting all PALs to participate in the second FAIRDOM PALs meeting. The event will take place on Dec. 9-10th , 2015 in Munich, immediately after the ERAsysAPP exchange meeting scheduled for Dec 8-9th. Beginning at 14:00 on Dec 9h, it will continue till 13:00 on Dec. 10th. Please, consider this when booking your plane/train tickets as well as hotel rooms.

The FAIRDOM team considers the meeting as an opportunity to update the PALs on available data/model management solutions, recent ...

This workshop is for computational biologists and experimentalists who wish to learn about standards, citeable data, about how to make scientific results sustainable, available through open repositories, and about how to find and reuse other people’s works. It comprises of a mixture of lectures and hands-on sessions. We will teach you the major standards and tools that support these standards, as well as steps towards encoding and publishing reproducible modeling results. Topics include data ...

The annual international conference on Intelligent Systems for Molecular Biology (ISMB) is the major meeting of the International Society for Computational Biology (ISCB). Over the past 22 years the ISMB conference has grown to become the world's largest bioinformatics/computational biology conference. Joining forces with the European Conference on Computational Biology (14th Annual Conference) ISMB/ECCB 2015 will be the year's most important computational biology event globally. The conferences ...

The BBSRC has recently funded the UK Multiscale Biology network, motivated by BBSRC strategic discussions which identified ‘Multi-Scale Biology’ (MSB) as a key area of research and capability that will be at the forefront of bioscience research over the next 5-10 years. The network will aim to: • facilitate the exploitation of areas of synergy between researchers across the UK in the broad area of multi-scale biology (MSB); • raise awareness of the benefits of MSB; • identify areas that are most ...

1st FAIRDOM + EraSysApp PALs meeting will be co-located with ERASysAPP – EXCHANGE: Networking and Info Day in Berlin, on 16 -17 April 2015

April 16th ABION Spreebogen Hotel, Salon Charlottenburg

18:00 -22:00 Social gathering and informal presentations with FAIRDOM team + old PALs +new PALs (with food and drinks served)

April 17th ABION Spreebogen Hotel, Salon Bellevue

9:00 -9:15 Short introduction from funders (Christian Rückert, PtJ)

9:15 -10.00 Warming up FAIRDOM, FAIRDOMHub and openSEEK ...

Semantic web applications and tools for life science.

Since 2008, the SWAT4LS Workshop has provided a platform for the presentation and discussion of the benefits and limits of applying web-based information systems and semantic technologies in the domains of health care and life sciences. SWAT4LS will provide the same open and stimulating environment that has previously brought together researchers, developers, and users, from various fields including eHealth, biomedical and clinical informatics, ...

The kickoff meeting of CropClock team took place in November 12, 2014 at the Max Plank Institute (MPIPZ, http://www.mpipz.mpg.de/en), Kologne, Germany. The goal for this meeting was for the members of the various teams to get acquainted with each other’s expertise and to discuss the following items: 1) Logistics about the project start, 2) Data that need to be shared, 3) Matlab code that needs to shared among the teams. The initial plan of action for data sharing was also laid out.

This mini-symposium, colocated at the ECMTB in Gothenburg, presents the state-of-the-art in computational methods for multicellular systems biology. It brings together developers and users of this software to identify common approaches and future challenges concerning multiscale integration, model specification, model exchange, scalability, workflow management as well as compliance to standards and guidelines. The session thus aims to provide an overview of the available modeling and simulation ...

Approximate dates of plant growth and harvesting by Imaizumi lab, University of Washington in Seattle

Systems Biology is one of the most prominent newly emerging interdisciplinary science areas. By connecting fields such as genomics, proteomics, cell biology, medicine, molecular biology, biochemistry and genetics, with mathematics, bioinformatics, engineering and computation, it enables discovery of yet unknown principles underlying the functioning of living cells. At the same time testable and predictive models of complex cellular pathways and eventually of whole cells are generated, which are ...

7th All hands PALs + SEEK users meeting will be co-located with Computational Modeling in Biology Network (COMBINE) meeting taking place from 16th to 20th of September 2013 in Paris. COMBINE is an initiative to coordinate the development of the various community standards and formats, details to meeting agenda and location here: http://mbine.org/events/COMBINE_2013

We plan to arrive on Wednesday, 18th, to participate in COMBINE on Thursday and Friday morning, and to have PALs- only sessions on ...

The next All Hands PALs meeting will take place on Thursday 29th and Friday 30th November 2012 in Heidelberg. The meeting will start on Thursday morning (arriving in Heidelberg on Wednesday evening), and finishing after lunch on Friday, so that you can get to home before weekend starts.

Meeting agenda

Thursday 29th November 9:15 Arriving at HITS 9:30 – 10:00 Introduction to PALs meeting 10:00 – 10:45 Review of new SEEK features. 10:45 – 11:00 Coffee break 11:00 – 12:00 An update on SEEK BioSamples ...