Presentations

Oral presentation given at Conference Amine 5.0

Poster presentation in Conference Biocat 2022

Oral presentation at the Conference Biotrans 2023

Oral presentation on EB Days 2023

Poster presentation at EB Days 2023

Poster presentation in Conference Biocat 2022

Poster presentation in Conference Biocat 2022

Poster presentation at Biotrans 2021 Conference.

Poster presentation on Conference Biotrans 2021

Poster presentation at GRC Biocatalysis 2022

Poster presented in Conference BioCat 2022

Update about Samples related features in FAIRDOM-SEEK (Flora D’Anna, VIB)

Overview of the latest FAIRDOM-SEEK release (Stuart Owen, University of Manchester)

Presentation of the new roadmap (Stuart Owen, University of Manchester)

FAIRDOM: hands-on basic training

An Introduction of FAIRDOM-SEEK for the members of Cell4Chem project at Trondheim, Norway. The workshop was organised by Centre for digital life (DTL), Norway

Presentation at the ELIXIR-CONVERGE "2nd online community event for life scientists involved or interested in DM/DS training"

https://www.denbi.de/de-nbi-events/1418-2nd-online-community-event-for-cop-in-dm-ds-training

Department of Catalysis and Chemical Reaction Engineering, National Institute of Chemistry, Slovenia

FAIR Data, Operations and Model management for Systems Biology and Systems Medicine Projects given at 1st Conference of the European Association of Systems Medicine, 26-28 October 2016, Berlin. the FAIRDOM project is described.

Lecture 2: Being Reproducible: Models, Research Objects and R* Brouhaha Reproducibility is a R* minefield, depending on whether you are testing for robustness (rerun), defence (repeat), certification (replicate), comparison (reproduce) or transferring between researchers (reuse). Different forms of "R" make different demands on the completeness, depth and portability of research. Sharing is another minefield raising concerns of credit and protection from sharp practices. In practice the exchange, ...

Lecture 1: Being FAIR: FAIR data and model management In recent years we have seen a change in expectations for the management of all the outcomes of research – that is the “assets” of data, models, codes, SOPs, workflows. The “FAIR” (Findable, Accessible, Interoperable, Reusable) Guiding Principles for scientific data management and stewardship [1] have proved to be an effective rallying-cry. Funding agencies expect data (and increasingly software) management retention and access plans. Journals ...

Presented at Digital Life 2018, Bergen, March 2018. In the Trust and Accountability session. In recent years we have seen a change in expectations for the management and availability of all the outcomes of research (models, data, SOPs, software etc) and for greater transparency and reproduciblity in the method of research. The “FAIR” (Findable, Accessible, Interoperable, Reusable) Guiding Principles for stewardship [1] have proved to be an effective rallying-cry for community groups and for policy ...

A personal view of the big picture in Research Data Management, given at GFBio - de.NBI Summer School 2018 Riding the Data Life Cycle! Braunschweig Integrated Centre of Systems Biology (BRICS), 03 - 07 September 2018

FAIRDOM User Meeting, Lyon, France, 27 Oct 2018 Introduction to FAIRDOM Project and platforms

Keynote presented at the workshop FAIRe Data Infrastructures, 15 October 2020 https://www.gmds.de/aktivitaeten/medizinische-informatik/projektgruppenseiten/faire-dateninfrastrukturen-fuer-die-biomedizinische-informatik/workshop-2020/

Remarkably it was only in 2016 that the ‘FAIR Guiding Principles for scientific data management and stewardship’ appeared in Scientific Data. The paper was intended to launch a dialogue within the research and policy communities: to start a journey to wider accessibility ...

COMBINE 2019, EU-STANDS4PM, Heidelberg, Germany 18 July 2019 FAIR: Findable Accessable Interoperable Reusable. The “FAIR Principles” for research data, software, computational workflows, scripts, or any other kind of Research Object one can think of, is now a mantra; a method; a meme; a myth; a mystery. FAIR is about supporting and tracking the flow and availability of data across research organisations and the portability and sustainability of processing methods to enable transparent and ...

Talk given by Olga Krebs and Aleyey Kolodkin at the" Best practices in research data management and stewardship" training on 17 June 2021

The openbis tutorial covering all tasks and instructions.

This presentation accompagnies the openbis hands-on tutorial.

COVID-19 modelling efforts in advice to Luxembourg government , talk given by Atte Aalto

Hands on session given by Olga Krebs

Introductory lecture Biology & Epidemiology

FAIRDOMHub: Implementing FAIR Data Principles for scientific data management and stewardship. Talk given by Olga Krebs

Poster presented in Protein Engineering Congress EU

An overview over important lessons from the experience with SBML Level 3 extension for the MultiCellML language.

FAIRDOM User Meeting Introduction

PAL report during COMBINE2019 SEEK user meeting. A short overview of the SEEK API and using it to upload caffeine data and images.

The code is available from https://github.com/matthiaskoenig/ipython_for_SEEK-API

Progress on FAIRDOM/SEEK use at the University Medical Center Göttingen.

1. Digital biotechnology
2. The value chain
3. Examples
4. Tools and funding
5. Data sharing

https://www.dnvgl.com/ocean-space/index.html

Björgólfur Hávarðsson is Innovation Manager in the NCE Seafood Innovation Cluster, Norway. He leads AquaCloud, a sea-louse forecast system that streams data from 3000 netcages to provide individually tailored precautionary recommendations to its participants. What do the participants contribute, and what do they get out? What are their motivations, and how was the collaboration organised?

Look to medicine: Computer models enter clinical practice. The genotype x environment --> phenotype map. The Digital Life Norway network and researcher projects. The Digital Salmon: a library of models and data. The merits of mathematical modelling. Commoditizing models and data. Goals for the workshop:

• Participants' input!
• Is there support for a Digital Salmon knowledge base? -- Moral commitment from industry, academia, funders. -- Some form of consortium, reponsible for next workshop. ...

FAIRDOM introduction by Olga Krebs

TATAA biocenter workshop lecture

Introductory talk given by Olga Krebs in the Department of Chemical Engineering at the University of Rovira i Virgili on 19th of July 2017

Introductory talk given by Olga Krebs in the Department of Chemical Engineering at the University of Rovira i Virgili on 19th of July 2017

SEEK functionalities presented by Olga Krebs

Talk given by Olga Krebs at EmPowerPutida project meeting in Bruxeles 23rd November 2016

FAIRDOMHub training for SYSTERACT project meeting on 10th of November 2016 in Leiden, NL

ZIP file of Andrew Millar's pictures showing the growth location and setup on 8th June 2016, for plants that were later harvested at the summer solstice in 2016. Location was at the South edge of King's Buildings campus, outside the shelter belt of trees (so they did not shade the plot). The plot is surrounded by access fencing that also cuts some of the wind, established by UoE greenhouse staff led by Dr. Sophie Haupt. The plants were set up and grown by Sarah Hodge, under a light shade of 4 ...

The samples that were subsequently harvested for RNA extraction in Takato's summer study; pictures from Young Hun and Akane

How do you communicate a complex research endeavour in simple words and pictures using only two minutes? In my case that turned out to be scientifically impossible, but we managed to shave it down to three. This poster shows and tells how we went about it.

Three-minute presentation of the Digital Salmon research programme. Explains the societal challenge of sustainable fish feed, how systems biology helps speed up the search for better solutions, and the grand aim to build a library of mathematical models of salmon physiology linked to omics data.

Outline report of joint research conducted during MSBnet-funded visit of Sanu Shameer to Millar lab

Talk given by Olga Krebs at FAIRDOM-LiSyM-de.NBI Data Structuring Course - Nov 22-23 in Hünfeld (D)

My graduation project presentation given on 22 of June at the Hanze University of Applied Sciences Groningen in The Netherlands.

Report about PAL experience and data management solutions in MM-PLF LiSyM.

Improve project deployment by letting your team focus on code quality instead of fixes problems. Spend more time on new features and let your project progress getting tested automatically.

This document helps Horizon 2020 beneficiaries make their research data findable, accessible, interoperable and reusable (FAIR), to ensure it is soundly managed. Good research data management is not a goal in itself, but rather the key conduit leading to knowledge discovery and innovation, and to subsequent data and knowledge integration and reuse. Note that these guidelines do not apply to their full extent to actions funded by the ERC. For information and guidance concerning Open Access and the ...

FAIRDOM Introduction

Step-by-step instructions for hands on session

Presented by Yannick Wurm at the first FAIRDOM user meeting.

Talk by Jon Olav Vik, Norwegian University of Life Sciences

Talk given by Tomasz Zieliński

Talk given by Sergey Lashin from Institute of Cytology and Genetics, Novosibirsk, Russia

Presented by Martin Böhm, German Cancer Research Center, Heidelberg, Germany

Talk by Jacky Snoep, Stellenbosch University, SA

Our group develops computational models of the liver within the German systems biology projects VLN (Virtual Liver Network) and LiSyM (Systems Medicine of the Liver). In this talk we present our experiences in data and model management in recent years and future directions towards reproducible computational research we plan to implement.

We give an overview over the role of Fairdom and SEEK within our data management solution and how this integrates with and complements other approaches such as ...

Talk given by Maksim Zakhartsev (Hohenheim University, Stuttgart, Germany, member of MOSES, ZucAt and ExtremoPharm projects)

Hint Task 4. Please refer to the related task sheet: https://fairdomhub.org/presentations/251

Hint Task 5. Please refer to the related task sheet: https://fairdomhub.org/presentations/251

Hint Task 9A. Please refer to the related task sheet: https://fairdomhub.org/presentations/251

Hint Task 9. Please refer to the related task sheet: https://fairdomhub.org/presentations/251

The paper by Tyson for the Hands-on Model Management in SEEK. Please refer to the related task sheet: https://fairdomhub.org/presentations/251

Presentation at the 10th anniversary of SABIO-RK, Heidelberg 2016

Here you find the Tasks for todays Hands-on Model Management in SEEK session

Presentation at the SysMO-LAB2 meeting in Copenhagen November 2012. Group from Nofima/Norwegian University of Life Sciences, Ås, Norway. Work on four strains of Lactobacillus plantarum, omics-analyses, diversity.

Koen van Grinsven

SysMO-LAB2 meeting in Copenhagen Nov 21-22, 2012

HITS/MCM Presentation at the SysMO-LAB2 meeting in Copenhagen on November, 22.11.2012

Poster presented at the 12th International Conference on Systems Biology (ICSB), Heidelberg/Mannheim, August 28 - September 1, 2011.

The presentation was given during the PALs meeting in Munich on Dec. 10th, 2015 It talks about openBIS, an open, distributed system for managing biological information. The main goal of openBIS is to support biological research data workflows from the source (i.e. the measurement instruments) to data processing and analyzing facilities.

Slides that were presented alongside a SEEK demonstration at the EraSysApp PALS meeting in Munich - December 2015

Written and presented by Carole Goble (University of Manchester) as part of the Reproducible and Citable Data and Models Workshop in Warnemünde, Germany. September 14th - 16th 2015.

Documentation for using FAIRDOMHUB / SEEK for a workshop in Warnemunde, September 2015.

about Mark

Workshop by the fairdomhub team on reproducible and citable data and models

Written and presented by Carole Goble (University of Manchester) at Multiscale Biology Network Springboard meeting, Nottingham. June 1st 2015.

Written and presented by Carole Goble (University of Manchester) at Multiscale Biology Network Springboard meeting, Nottingham. June 1st 2015.

Written and presented by Wolfgang Müller (HITS) as part of the Reproducible and Citable Data and Models Workshop in Warnemünde, Germany. September 14th - 16th 2015.

Written by Martin Scharm (University of Rostock), Ron Henkel (University of Rostock), Dagmar Waltemath (University of Rostock), Olaf Wolkenhauer (University of Rostock, Stellenbosch University), and presented by Martin Scharm (University of Rostock) as part of the Reproducible and Citable Data and Models Workshop in Warnemünde, Germany. September 14th - 16th 2015.

Written and presented by Dagmar Waltemath (University of Rostock) as part of the Reproducible and Citable Data and Models Workshop in Warnemünde, Germany. September 14th - 16th 2015.

Written and presented by Mihai Glont (EMBL-EBI, UK), at the Reproducible and Citable Data and Model Workshop, September 14th -16th 2015.

Prepared and presented by Jo McEntyre (EMBL_EBI) as part of the Reproducible and Citable Data and Models Workshop in Warnemünde, Germany. September 14th - 16th 2015.

Written and presented by Tom Ingraham (F1000), at the Reproducible and Citable Data and Model Workshop, in Warnemünde, Germany. September 14th -16th 2015.

Prepared and presented by Carole Goble (University of Manchester), Wolfgang Mueller (HITS), Dagmar Waltermath (University of Rostock), at the Reproducible and Citable Data and Models Workshop, Warnemünde, Germany. September 14th - 16th 2015.