This document discusses elements of successful open access, open data, and open science policies. It covers how to design policies by aligning requirements, making them clear and simple, and providing support and incentives. It also discusses monitoring policy implementation and compliance. Key steps in implementing policies include preparing by researching other policies, assessing infrastructure, and planning costs, then developing the policy content and supporting mechanisms.
Text Mining - Techniques & Limitations (A Pharmaceutical Industry Viewpoint)Frank Oellien
Presentation given at the 6th and last meeting of the European Commission "Licenses for Europe" Text and Data Mining Working Group (WG4).
The first part of the talk gives a very brief introduction of some basic concepts of text mining techniques used in Pharmaceutical industry using the Accelrys PP text mining collection.
The second part of the talk focuses on existing limitations pharmaceutical companies are facing in the field of Text mining.
http://ec.europa.eu/licences-for-europe-dialogue/en/content/text-and-data-mining-working-group-wg4
Update from Data policy standardisation and implementation IGVarsha Khodiyar
Update given to the Research Data Alliance Plenary 12 joint meeting session: WG FAIRSharing Registry and Data Policy Standardisation and Implementation IG, on Monday 5th November 2018, Gaborone, Botswana
Making Open Access Work for Ireland: Geraldine Clement Stoneham - MRCThe Royal Irish Academy
The Royal Irish Academy and the Irish Research Council held a forum on Open Access in May 2013.
More Details - http://www.ria.ie/about/our-work/policy/ria-initiatives/making-open-access-work-for-ireland.aspx
Using Library Resources for your DissertationGaz Johnson
Talk given to education distance learning postgraduate students studying at Leicester. Covers data resources available to them, along with basic Boolean searching practice.
Text Mining - Techniques & Limitations (A Pharmaceutical Industry Viewpoint)Frank Oellien
Presentation given at the 6th and last meeting of the European Commission "Licenses for Europe" Text and Data Mining Working Group (WG4).
The first part of the talk gives a very brief introduction of some basic concepts of text mining techniques used in Pharmaceutical industry using the Accelrys PP text mining collection.
The second part of the talk focuses on existing limitations pharmaceutical companies are facing in the field of Text mining.
http://ec.europa.eu/licences-for-europe-dialogue/en/content/text-and-data-mining-working-group-wg4
Update from Data policy standardisation and implementation IGVarsha Khodiyar
Update given to the Research Data Alliance Plenary 12 joint meeting session: WG FAIRSharing Registry and Data Policy Standardisation and Implementation IG, on Monday 5th November 2018, Gaborone, Botswana
Making Open Access Work for Ireland: Geraldine Clement Stoneham - MRCThe Royal Irish Academy
The Royal Irish Academy and the Irish Research Council held a forum on Open Access in May 2013.
More Details - http://www.ria.ie/about/our-work/policy/ria-initiatives/making-open-access-work-for-ireland.aspx
Using Library Resources for your DissertationGaz Johnson
Talk given to education distance learning postgraduate students studying at Leicester. Covers data resources available to them, along with basic Boolean searching practice.
Researcher KnowHow session on Anonymisation 101, based on slides and training materials by Dr Sarah Nevitt, Research Associate at the University of Liverpool with a section on Research Data Management and Anonymisation by Judith Carr, Research Data Manager and co-ordinated by Gary Jeffers, Research Data Officer at University of Liverpool Library.
Finding Information for Foundation Degree in MVCO (DL) StudentsGaz Johnson
Slides for the 19th April lecture given to foundation degree in Managing Community & Voluntary Organisations - detailing data resources and good searching practice.
Open Access policies and best practicesIryna Kuchma
The presentation covers good practice approaches to designing and implementing open access policies aligned with the European Commission's (EC) Recommendation to Member States on Access to and preservation of scientific information of July 2012, Guidelines on open access to scientific publications and research data in Horizon 2020 and the EC's Horizon 2020 Multi-beneficiary General Model Grant Agreement. Open access policy alignment check-list will be presented covering the following issues: Are beneficiaries required to deposit and ensure open access? What to deposit? Where to deposit? When to deposit? When should open access be provided? Policy monitoring and compliance as well as open access publishing (from the policy perspective) will also be covered as a part of this presentation. PASTEUR4OA report on the Open access policy effectiveness will provide important evidence that open access policies should include at least three elements for effectiveness, namely, a mandatory deposit that cannot be waived, and linking depositing with research evaluation.
Slides prepared for the "Horizon Europe Train-the-trainer workshop" held during the 2021 Open Science Fair.
Slide 5 is a revision of the slide that was presented during the event
OpenAIRE webinar: Horizon 2020 Open Science Policies and beyond, with Emilie ...OpenAIRE
The global shift towards making research findings available free of charge and sharing and opening up the research process, so-called 'Open Science’, has been a core strategy in the European Commission to improve knowledge circulation and innovation.
It is illustrated in particular by the Open Science policies for the ECs framework programme.
In this webinar, I will talk about the OS policies for open access to scientific publications and the pilot for research data in Horizon 2020, followed by a preview of what to expect for Open Science in the new Horizon Europe programme.
---
The 2019 International Open Access Week will be held October 21-27, 2019. This year’s theme, “Open for Whom? Equity in Open Knowledge,” builds on the groundwork laid during last year’s focus of “Designing Equitable Foundations for Open Knowledge.”
As has become a tradition of sorts, OpenAIRE organises a series of webinars during this week, highlighting OpenAIRE activities, services and tools, and reach out to the wider community with relevant talks on many aspects of Open Science.
The greatest possible impact: The Wellcome Trust and open researchUoLResearchSupport
Research funders are increasingly recognising the importance of open research practices, to increase the reach and impact of their funded research and to ensure the integrity of research results.
The Wellcome Trust have been leading efforts to make research more open for more than 20 years, ever since working to make sure the results of the Human Genome Project were released immediately into the public domain. They were also the first research funder to introduce a mandatory open access policy, with more than 150 global research funders having since followed their lead. More recently, they have developed the Wellcome Open Research platform, which allow their researchers to rapidly publish and share their findings openly and transparently, and encourage researchers to cite preprints in their grant applications.
On Thursday 17th June we welcome Sonya Towers, Grants Adviser - Immunobiology and Infectious Disease at the Wellcome Trust, to discuss Wellcome’s approach to open research including their Output Management Plan pilot on which they are liaising with the University of Leeds.
Presentation of open science requirements in Horizon Europe for the Research and Innovation Foundation in Cyprus. Analyzes requirements of model grant agreement (publications, research data, additional open science practices, open science and evaluation process, open research europe.
Presentation at the Joint Executive Board Meeting of the European Federation of Psychology Students’ Associations (EFPSA), October 28, 2014,Dobra Voda, Serbia
Presentation by the RIN's Director, Michael Jubb, at the Spanish Research Council's (CSIC) workshop on the politics of the promotion of open access in Barcelona in March 2010. http://www.csic.es/web/guest/home
UK and US positions on open access – Steven Hill, HEFCE and Sarah Thomas, Harvard University
University of California and university digital library costing models – MacKenzie Smith, UC Davis
Total cost of ownership and flipped OA – Liam Earney, Jisc
Jisc and CNI conference, 6 July 2016
Researcher KnowHow session on Anonymisation 101, based on slides and training materials by Dr Sarah Nevitt, Research Associate at the University of Liverpool with a section on Research Data Management and Anonymisation by Judith Carr, Research Data Manager and co-ordinated by Gary Jeffers, Research Data Officer at University of Liverpool Library.
Finding Information for Foundation Degree in MVCO (DL) StudentsGaz Johnson
Slides for the 19th April lecture given to foundation degree in Managing Community & Voluntary Organisations - detailing data resources and good searching practice.
Open Access policies and best practicesIryna Kuchma
The presentation covers good practice approaches to designing and implementing open access policies aligned with the European Commission's (EC) Recommendation to Member States on Access to and preservation of scientific information of July 2012, Guidelines on open access to scientific publications and research data in Horizon 2020 and the EC's Horizon 2020 Multi-beneficiary General Model Grant Agreement. Open access policy alignment check-list will be presented covering the following issues: Are beneficiaries required to deposit and ensure open access? What to deposit? Where to deposit? When to deposit? When should open access be provided? Policy monitoring and compliance as well as open access publishing (from the policy perspective) will also be covered as a part of this presentation. PASTEUR4OA report on the Open access policy effectiveness will provide important evidence that open access policies should include at least three elements for effectiveness, namely, a mandatory deposit that cannot be waived, and linking depositing with research evaluation.
Slides prepared for the "Horizon Europe Train-the-trainer workshop" held during the 2021 Open Science Fair.
Slide 5 is a revision of the slide that was presented during the event
OpenAIRE webinar: Horizon 2020 Open Science Policies and beyond, with Emilie ...OpenAIRE
The global shift towards making research findings available free of charge and sharing and opening up the research process, so-called 'Open Science’, has been a core strategy in the European Commission to improve knowledge circulation and innovation.
It is illustrated in particular by the Open Science policies for the ECs framework programme.
In this webinar, I will talk about the OS policies for open access to scientific publications and the pilot for research data in Horizon 2020, followed by a preview of what to expect for Open Science in the new Horizon Europe programme.
---
The 2019 International Open Access Week will be held October 21-27, 2019. This year’s theme, “Open for Whom? Equity in Open Knowledge,” builds on the groundwork laid during last year’s focus of “Designing Equitable Foundations for Open Knowledge.”
As has become a tradition of sorts, OpenAIRE organises a series of webinars during this week, highlighting OpenAIRE activities, services and tools, and reach out to the wider community with relevant talks on many aspects of Open Science.
The greatest possible impact: The Wellcome Trust and open researchUoLResearchSupport
Research funders are increasingly recognising the importance of open research practices, to increase the reach and impact of their funded research and to ensure the integrity of research results.
The Wellcome Trust have been leading efforts to make research more open for more than 20 years, ever since working to make sure the results of the Human Genome Project were released immediately into the public domain. They were also the first research funder to introduce a mandatory open access policy, with more than 150 global research funders having since followed their lead. More recently, they have developed the Wellcome Open Research platform, which allow their researchers to rapidly publish and share their findings openly and transparently, and encourage researchers to cite preprints in their grant applications.
On Thursday 17th June we welcome Sonya Towers, Grants Adviser - Immunobiology and Infectious Disease at the Wellcome Trust, to discuss Wellcome’s approach to open research including their Output Management Plan pilot on which they are liaising with the University of Leeds.
Presentation of open science requirements in Horizon Europe for the Research and Innovation Foundation in Cyprus. Analyzes requirements of model grant agreement (publications, research data, additional open science practices, open science and evaluation process, open research europe.
Presentation at the Joint Executive Board Meeting of the European Federation of Psychology Students’ Associations (EFPSA), October 28, 2014,Dobra Voda, Serbia
Presentation by the RIN's Director, Michael Jubb, at the Spanish Research Council's (CSIC) workshop on the politics of the promotion of open access in Barcelona in March 2010. http://www.csic.es/web/guest/home
UK and US positions on open access – Steven Hill, HEFCE and Sarah Thomas, Harvard University
University of California and university digital library costing models – MacKenzie Smith, UC Davis
Total cost of ownership and flipped OA – Liam Earney, Jisc
Jisc and CNI conference, 6 July 2016
Open Science and European Access Policies in H2020 Reme Melero
GEOTEC UJI and FOSTER project organized a training seminar in the context of GEO-C ESR entitled “Open Science and European Open Access policies in H2020”.
The seminar took place in Castellon (Spain), Feb 12th from 9.30 to 14.00.
The European Commission's proposal for embedding open science in horizon europe. Particular emphasis on open access and research data management aspects. Also presenting the new publishing platform of the Commission, Open Research Europe
After an introduction to open science policy in Horizon Europe, the main focus of the presentation is open access to publications requirements in Horizon Europe and Open Research Europe for the Estonian Research Council in June 2021
A research institution's view of their role in OA mandates and policies: Usin...enlightenrepository
Brief presentation on Insitutional and Funder Mandates as part of the Berlin 7 Session: Practical challenges in moving to Open Access: a focus on research funders and universities
OSFair2017 workshop | Monitoring open science trends in europeOpen Science Fair
Salil Gunashekar presents topen science trends in europe
Workshop title: Open Science Monitor
Workshop overview:
Which are the measurable components of Open Science? How do we build a trustworthy, global open science monitor? This workshop will discuss a potential framework to measure Open Science, including the path from the publishing of an open policy (registries of policies and how these are represented or machine read), to the use of open methodologies, and the opening up of research results, their recording and measurement.
DAY 2 - PARALLEL SESSION 5
OSFair2017 Worksop | NUCLEUS project - Are you ready to perform in RRI ecosys...Open Science Fair
Menelaos Sotiriou talks about innovative dissemination in the context of NUCLEUS project & theatrical workshops.
Workshop title: Innovative dissemination practices & Altmetrics
Workshop abstact:
The goal of the workshop is to further the understanding of innovative dissemination practices in open science and their relationship with altmetrics. In the first part of the workshop, OpenUP project researchers will give an overview of an innovative dissemination framework. The framework describes good practices and gives recommendations on how to create a successful research dissemination strategy beyond traditional academic dissemination. A special focus will lie on how to reach target audiences beyond the research community (e.g. business or the general public). Participants will be able to test the framework and a toolbox based on their dissemination needs and to give feedback in a discussion that involves the perspective of all stakeholders of dissemination and assessment (researchers and research organizations, funders, policy makers, journalists, practitioners & businesses etc.). In the second part, we will present a taxonomy linking channels of dissemination and altmetrics indicators. In between, we will present best practice examples of innovative dissemination.
DAY 2 - PARALLEL SESSION 3
http://opensciencefair.eu/workshops/parallel-day-2-1/innovative-dissemination-practices-and-altmetrics
OSFair2017 Workshop | Data Analytics meets Social Sciences: New Frontiers of ...Open Science Fair
Haris Papageorgiou talks about Data Analytics in Social Sciences
Workshop title:TDM unlocking a goldmine of information
Training overview:
Text and Data Mining (TDM) is a natural ‘next step’ in open science. It can lead to new and unexpected discoveries and increase the impact of publications and repositories. This workshop showcases examples of successful TDM and infrastructural solutions for researchers. We will also discuss what is needed to make most of infrastructures and how publishers and repositories can open up their content.
DAY 2 - PARALLEL SESSION 4 & 5
OSFair2017 Workshop | Building a global knowledge commons - ramping up reposi...Open Science Fair
Eloy Rodrigues, Petr Knoth & Kathleen Shearer showcase the conceptual model for this vision, as well as the role and functions of repositories within this model.
Workshop title: Building a global knowledge commons - ramping up repositories to support widespread change in the ecosystem
Workshop abstract:
The extensive international deployment of repository systems in higher education and research institutions, as well as scholarly communities, provides the foundation for a distributed, globally networked infrastructure for scholarly communication. This distributed network of repositories can and should be a powerful tool to promote the transformation of the scholarly communication ecosystem. However, repository platforms are still using technologies and protocols designed almost twenty years ago, before the boom of the web and the dominance of Google, social networking, semantic web and ubiquitous mobile devices. In April 2016, the Confederation of Open Access Repositories (COAR) launched a working group to help identify new functionalities and technologies for repositories and develop a road map for their adoption. For the past several months, the group has been working to define a vision for repositories and sketch out the priority user stories and scenarios that will help guide the development of new functionalities. The results of this work will be available in the summer of 2017.
This workshop will present the functionalities and technologies for the next generation of repositories and reflect on how these functionalities will be adopted into the existing software platforms. In addition, participants will discuss the important implications for the network layers, and how repositories will uniformly interact with the networks to provide value added services on top of their content.
DAY 3 - PARALLEL SESSION 6 & 7
http://www.opensciencefair.eu/workshops/parallel-day-3-1/building-a-global-knowledge-commons-ramping-up-repositories-to-support-widespread-change-in-the-ecosystem
OSFair2017 Workshop | Research lifecycle in Arts, Humanities and Social SciencesOpen Science Fair
Agiatis Benardou, Caroline Sutton & Janet Remington talk about the research lifecycle in Arts, Humanities & Social Sciences
Workshop title: Research lifecycles in the humanities and social sciences
Workshop abstract:
A host of initiatives have moved the open agenda beyond simply open access to journal articles or monographs to a consideration of the entire research lifecycle and points at which this can be opened up. Further, we are entering a second phase of open scholarship whereby the community is now seeking to link together the many scattered solutions for different pieces of the research lifecycle. Open Scholarship offers an important opportunity for scholars in the social sciences and humanities. Although open access has gained traction more recently, it is well-known that widespread adoption of and transition to open access to journals and monographs has lagged behind many other subject areas for a host of reasons. Engaging scholars in these subject areas in open scholarship more broadly offers and opportunity to approach open from a multitude of angles. However, the research lifecycle that is presented and visualized by those engaged in open science typically visualises that of a scientist working within STEM fields. This follows an expected pattern (e.g. planning, implementation, publishing, discovery and impact, preservation, re-use) or sets of patterns in the form of sub-cycles (e.g. planning cycle, project cycle, publication cycle, preservation cycle, impact). These visualisations do not align with the process of scholarly inquiry that many humanities scholars and qualitative social scientists are engaged in and risks marginalising some communities. Imagine a professor of music, who creates bits of initially unrelated compositions and harmonies, which arose out of inspiration derived from listening to a gentle brook. These might give rise to new understandings of former theories of music or push forward techniques. The aim of this workshop is to work together with scholars to identify a series of research workflows that better reflect the processes of scholarship in the humanities and social sciences. Once lifecycles are drafted, participants will identify points of potential sharing and open opportunities. These points will then be associated with current solutions and gaps will be identified.
DAY 1 - PARALLEL SESSION 2
http://opensciencefair.eu/workshops/parallel-day-1-2/research-lifecycles-in-the-humanities-and-social-sciences
OSFair2017 Workshop | Towards a Policy Framework for the European Open Scienc...Open Science Fair
Workshop title: Towards a Policy Framework for the European Open Science Cloud
Workshop abstract:
The workshop provides a hands on approach in relation both to the understanding of the EU open science policies and their application by related stakeholders. It will seek to explore, propose and test different aspects of policy documents created by and for different types of stakeholders (e.g. RPOs, funders, policy makers etc) in the context of EOSC. Drawing on the work by the EOSC policy work, the workshop invites participants to bring their own policies or work on model policies to develop a simple but comprehensive policy document tailored to their needs and conforming to the EU policy and legal framework.
It is useful to the broader Open Science community as it brings together services, stakeholders and policies and allows for a better understanding of the interaction between different constituencies.
DAY 2 - PARALLEL SESSION 3
OSFair2017 Workshop | Big Mechanism: deep reading for cancer biologyOpen Science Fair
Sophia Ananiadou talks about big mechanisms (from text to experiments using their text mining)
Training title:TDM unlocking a goldmine of information
Training overview:
Text and Data Mining (TDM) is a natural ‘next step’ in open science. It can lead to new and unexpected discoveries and increase the impact of publications and repositories. This workshop showcases examples of successful TDM and infrastructural solutions for researchers. We will also discuss what is needed to make most of infrastructures and how publishers and repositories can open up their content.
DAY 2 - PARALLEL SESSION 4 & 5
Manuel Noya talks about the science-industry relationship driven by competitive intelligence and how to surf emerging technologies
Workshop title:TDM unlocking a goldmine of information
Training overview:
Text and Data Mining (TDM) is a natural ‘next step’ in open science. It can lead to new and unexpected discoveries and increase the impact of publications and repositories. This workshop showcases examples of successful TDM and infrastructural solutions for researchers. We will also discuss what is needed to make most of infrastructures and how publishers and repositories can open up their content.
DAY 2 - PARALLEL SESSION 4 & 5
Matthew Dovey & Jessica Parland-von Essen present EOSC governance & objectives.
Workshop title: Open Science policy in the context of EOSC governance framework
Workshop overview:
The challenge of EOSC governance is how to construct a framework allowing varied and disparate stakeholders to work together. The EOSCPilot project has established a Governance Development Forum (EGDF) so that all stakeholders can contribute to the development of a governance framework to inform the establishment of EOSC and its governance structure. In this workshop we will discuss how Open Science should manifest in the EOSC governance framework.
When: DAY 2 - PARALLEL SESSION 4
Stefano Nativi presents the RDA.
Workshop title: Organising high-quality research data management services
Workshop abstract:
Open science needs high quality data management where researchers can create, use and share data according to well defined standards and practices. this is one of the pillars of Open Science. In the data management landscape we find quite a few organisations that aim at achieving this, however to get it right, a collaboration is called for where all can play a suitable role and present this in a consistent way to the researcher.
The proposed workshop brings together representatives of standard organisation (RDA), eInfrastructures (EUDAT) and Libraries (LIBER) that together can organise the high quality data management for research.
DAY 1 - PARALLEL SESSION 2
http://opensciencefair.eu/workshops/organising-high-quality-research-data-management-services
OSFair2017 Workshop | Service provisioning for excellent sciencesOpen Science Fair
Daan Broeder presents the EUDAT community
Workshop title: Organising high-quality research data management services
Workshop abstract:
Open science needs high quality data management where researchers can create, use and share data according to well defined standards and practices. this is one of the pillars of Open Science. In the data management landscape we find quite a few organisations that aim at achieving this, however to get it right, a collaboration is called for where all can play a suitable role and present this in a consistent way to the researcher.
The proposed workshop brings together representatives of standard organisation (RDA), eInfrastructures (EUDAT) and Libraries (LIBER) that together can organise the high quality data management for research.
DAY 1 - PARALLEL SESSION 2
http://opensciencefair.eu/workshops/organising-high-quality-research-data-management-services
OSFair2017 Theatrical Workshop | Are you ready to perform in the rri ecosystemOpen Science Fair
Alexandros Koukovinis & Menelaos Sotiriou present the performance chapters.
Workshop abstract:
This workshop highlights the concept of a Support and Coordination H2020 action, namely NUCLEUS, which is targeted on Responsible Research and Innovation. It is aligned with the overall objective of the OSFair conference, answering to the impact of open science/novel ways of disseminating science.
What NUCLEUS project introduces, is that based on a common understanding that science and innovation are driving forces of sustainable and inclusive societies around the world, it will develop new cultural and organisational approaches allowing universities to better respond and react to societal needs and challenges. To pursue this goal NUCLEUS will develop, support and implement inclusive and sustainable approaches to “Responsible Research and Innovation” (RRI) within the governance and culture of European universities and research organisations.
A wide scale implementation roadmap and a future of science with and for the society will be presented in the most engaging way.
Day 1 - 17.30
http://opensciencefair.eu/theatrical-workshop-are-you-ready-to-perform-in-the-rri-ecosystem
OSFair2017 Theatrical Workshop | Nucleus H2020 EU projectOpen Science Fair
Alexandros Koukovinis & Menelaos Sotiriou present the Nucleus H2020 project.
Workshop abstract:
This workshop highlights the concept of a Support and Coordination H2020 action, namely NUCLEUS, which is targeted on Responsible Research and Innovation. It is aligned with the overall objective of the OSFair conference, answering to the impact of open science/novel ways of disseminating science.
What NUCLEUS project introduces, is that based on a common understanding that science and innovation are driving forces of sustainable and inclusive societies around the world, it will develop new cultural and organisational approaches allowing universities to better respond and react to societal needs and challenges. To pursue this goal NUCLEUS will develop, support and implement inclusive and sustainable approaches to “Responsible Research and Innovation” (RRI) within the governance and culture of European universities and research organisations.
A wide scale implementation roadmap and a future of science with and for the society will be presented in the most engaging way.
Day 1 - 17.30
http://opensciencefair.eu/theatrical-workshop-are-you-ready-to-perform-in-the-rri-ecosystem
OSFair2017 Workshop | Open Knowledge Maps, A visual interface to the world's ...Open Science Fair
Peter Kraker & Rainer Bachleitner make an introduction to Open Knowledge Maps
Workshop abstract:
This tutorial introduces participants to an innovative discovery tool that is built on top of the open science infrastructure. It showcases the value of open for all stakeholders beyond open access to research outputs. Participants will go on a scientific scavenger hunt in an unknown research field that is intended to improve their own discovery process, including ample time for feedback and discussion.
DAY 3 - PARALLEL SESSION 8
http://opensciencefair.eu/training/parallel-day-3-3/visual-discovery-with-open-knowledge-maps
OSFair2017 Training | Reproducibility in critical care researchOpen Science Fair
Tom Pollard talks about reproducibility in critical care research & makes an introduction to MIMIC, the eICU Collaborative Research Database and datathons
Workshop title: Datathons in Evidence-Based Medicine: Applying Open Science Principles to Support Cross-Disciplinary Education and Research
Workshop abstract:
In this interactive workshop, we explore how open science enables “datathons”, events that bring together teams of researchers to work together on unanswered clinical questions. We begin by outlining the datathon model and describe our experiences in holding these events internationally. We then offer an opportunity to participate in an interactice exercise, working together to analyse highly detailed information collected from patients admitted to critical care units at a large tertiary care hospital. Participants will learn about open science in clinical research and gain an overview of MIMIC-III, a freely-available critical care dataset collected from over >50,000 hospital stays.
DAY 2 - PARALLEL SESSION 3
http://opensciencefair.eu/training/parallel-day-2-1/datathons-in-evidence-based-medicine-applying-open-science-principles-to-support-cross-disciplinary-education-and-research
OSFair2017 Training | Big data and evidence-based medicine in GreeceOpen Science Fair
Lefteris Thireos talks about big data and evidence-based medicine in Greece.
Workshop title: Datathons in Evidence-Based Medicine: Applying Open Science Principles to Support Cross-Disciplinary Education and Research
Workshop abstract:
In this interactive workshop, we explore how open science enables “datathons”, events that bring together teams of researchers to work together on unanswered clinical questions. We begin by outlining the datathon model and describe our experiences in holding these events internationally. We then offer an opportunity to participate in an interactice exercise, working together to analyse highly detailed information collected from patients admitted to critical care units at a large tertiary care hospital. Participants will learn about open science in clinical research and gain an overview of MIMIC-III, a freely-available critical care dataset collected from over >50,000 hospital stays.
DAY 2 - PARALLEL SESSION 3
http://opensciencefair.eu/training/parallel-day-2-1/datathons-in-evidence-based-medicine-applying-open-science-principles-to-support-cross-disciplinary-education-and-research
OSFair2017 Training | What is Open Science and why should I care?Open Science Fair
Nancy Pontika talks about opening up science & implementation.
Workshop title: Fostering the practical implementation of Open Science in Horizon 2020 and beyond
Workshop overview:
This workshop will showcase some of the elements required for the transition to Open Science: services and tools, policies as guidance for good practices, and the roles of the respective actors and their networks.
DAY 2 - PARALLEL SESSION 4 & 5
OSFair2017 Training | OpenAIRE monitoring services, EC FP7 & H2020 & other na...Open Science Fair
Pedro Principe presents OpenAIRE monitoring services.
Workshop title: Fostering the practical implementation of Open Science in Horizon 2020 and beyond
Workshop overview:
This workshop will showcase some of the elements required for the transition to Open Science: services and tools, policies as guidance for good practices, and the roles of the respective actors and their networks.
DAY 2 - PARALLEL SESSION 4 & 5
OSFair2017 Training | Best practice in Open ScienceOpen Science Fair
Iryna Kuchma talks about best practices in Open Science.
Workshop title: Fostering the practical implementation of Open Science in Horizon 2020 and beyond
Workshop overview:
This workshop will showcase some of the elements required for the transition to Open Science: services and tools, policies as guidance for good practices, and the roles of the respective actors and their networks.
DAY 2 - PARALLEL SESSION 4 & 5
Peter Kraker, Michela Vignoli & Rainer Bachleitner give an overview of an innovative dissemination framework & present the OpenUP Innovative Dissemination Toolbox.
Workshop title: Innovative dissemination practices & Altmetrics
Workshop abstact:
The goal of the workshop is to further the understanding of innovative dissemination practices in open science and their relationship with altmetrics. In the first part of the workshop, OpenUP project researchers will give an overview of an innovative dissemination framework. The framework describes good practices and gives recommendations on how to create a successful research dissemination strategy beyond traditional academic dissemination. A special focus will lie on how to reach target audiences beyond the research community (e.g. business or the general public). Participants will be able to test the framework and a toolbox based on their dissemination needs and to give feedback in a discussion that involves the perspective of all stakeholders of dissemination and assessment (researchers and research organizations, funders, policy makers, journalists, practitioners & businesses etc.). In the second part, we will present a taxonomy linking channels of dissemination and altmetrics indicators. In between, we will present best practice examples of innovative dissemination.
DAY 2 - PARALLEL SESSION 3
http://opensciencefair.eu/workshops/parallel-day-2-1/innovative-dissemination-practices-and-altmetrics
License: CC-BY, unless otherwise noted
Slide 1: Title Slide
Extrachromosomal Inheritance
Slide 2: Introduction to Extrachromosomal Inheritance
Definition: Extrachromosomal inheritance refers to the transmission of genetic material that is not found within the nucleus.
Key Components: Involves genes located in mitochondria, chloroplasts, and plasmids.
Slide 3: Mitochondrial Inheritance
Mitochondria: Organelles responsible for energy production.
Mitochondrial DNA (mtDNA): Circular DNA molecule found in mitochondria.
Inheritance Pattern: Maternally inherited, meaning it is passed from mothers to all their offspring.
Diseases: Examples include Leber’s hereditary optic neuropathy (LHON) and mitochondrial myopathy.
Slide 4: Chloroplast Inheritance
Chloroplasts: Organelles responsible for photosynthesis in plants.
Chloroplast DNA (cpDNA): Circular DNA molecule found in chloroplasts.
Inheritance Pattern: Often maternally inherited in most plants, but can vary in some species.
Examples: Variegation in plants, where leaf color patterns are determined by chloroplast DNA.
Slide 5: Plasmid Inheritance
Plasmids: Small, circular DNA molecules found in bacteria and some eukaryotes.
Features: Can carry antibiotic resistance genes and can be transferred between cells through processes like conjugation.
Significance: Important in biotechnology for gene cloning and genetic engineering.
Slide 6: Mechanisms of Extrachromosomal Inheritance
Non-Mendelian Patterns: Do not follow Mendel’s laws of inheritance.
Cytoplasmic Segregation: During cell division, organelles like mitochondria and chloroplasts are randomly distributed to daughter cells.
Heteroplasmy: Presence of more than one type of organellar genome within a cell, leading to variation in expression.
Slide 7: Examples of Extrachromosomal Inheritance
Four O’clock Plant (Mirabilis jalapa): Shows variegated leaves due to different cpDNA in leaf cells.
Petite Mutants in Yeast: Result from mutations in mitochondrial DNA affecting respiration.
Slide 8: Importance of Extrachromosomal Inheritance
Evolution: Provides insight into the evolution of eukaryotic cells.
Medicine: Understanding mitochondrial inheritance helps in diagnosing and treating mitochondrial diseases.
Agriculture: Chloroplast inheritance can be used in plant breeding and genetic modification.
Slide 9: Recent Research and Advances
Gene Editing: Techniques like CRISPR-Cas9 are being used to edit mitochondrial and chloroplast DNA.
Therapies: Development of mitochondrial replacement therapy (MRT) for preventing mitochondrial diseases.
Slide 10: Conclusion
Summary: Extrachromosomal inheritance involves the transmission of genetic material outside the nucleus and plays a crucial role in genetics, medicine, and biotechnology.
Future Directions: Continued research and technological advancements hold promise for new treatments and applications.
Slide 11: Questions and Discussion
Invite Audience: Open the floor for any questions or further discussion on the topic.
Seminar of U.V. Spectroscopy by SAMIR PANDASAMIR PANDA
Spectroscopy is a branch of science dealing the study of interaction of electromagnetic radiation with matter.
Ultraviolet-visible spectroscopy refers to absorption spectroscopy or reflect spectroscopy in the UV-VIS spectral region.
Ultraviolet-visible spectroscopy is an analytical method that can measure the amount of light received by the analyte.
Introduction:
RNA interference (RNAi) or Post-Transcriptional Gene Silencing (PTGS) is an important biological process for modulating eukaryotic gene expression.
It is highly conserved process of posttranscriptional gene silencing by which double stranded RNA (dsRNA) causes sequence-specific degradation of mRNA sequences.
dsRNA-induced gene silencing (RNAi) is reported in a wide range of eukaryotes ranging from worms, insects, mammals and plants.
This process mediates resistance to both endogenous parasitic and exogenous pathogenic nucleic acids, and regulates the expression of protein-coding genes.
What are small ncRNAs?
micro RNA (miRNA)
short interfering RNA (siRNA)
Properties of small non-coding RNA:
Involved in silencing mRNA transcripts.
Called “small” because they are usually only about 21-24 nucleotides long.
Synthesized by first cutting up longer precursor sequences (like the 61nt one that Lee discovered).
Silence an mRNA by base pairing with some sequence on the mRNA.
Discovery of siRNA?
The first small RNA:
In 1993 Rosalind Lee (Victor Ambros lab) was studying a non- coding gene in C. elegans, lin-4, that was involved in silencing of another gene, lin-14, at the appropriate time in the
development of the worm C. elegans.
Two small transcripts of lin-4 (22nt and 61nt) were found to be complementary to a sequence in the 3' UTR of lin-14.
Because lin-4 encoded no protein, she deduced that it must be these transcripts that are causing the silencing by RNA-RNA interactions.
Types of RNAi ( non coding RNA)
MiRNA
Length (23-25 nt)
Trans acting
Binds with target MRNA in mismatch
Translation inhibition
Si RNA
Length 21 nt.
Cis acting
Bind with target Mrna in perfect complementary sequence
Piwi-RNA
Length ; 25 to 36 nt.
Expressed in Germ Cells
Regulates trnasposomes activity
MECHANISM OF RNAI:
First the double-stranded RNA teams up with a protein complex named Dicer, which cuts the long RNA into short pieces.
Then another protein complex called RISC (RNA-induced silencing complex) discards one of the two RNA strands.
The RISC-docked, single-stranded RNA then pairs with the homologous mRNA and destroys it.
THE RISC COMPLEX:
RISC is large(>500kD) RNA multi- protein Binding complex which triggers MRNA degradation in response to MRNA
Unwinding of double stranded Si RNA by ATP independent Helicase
Active component of RISC is Ago proteins( ENDONUCLEASE) which cleave target MRNA.
DICER: endonuclease (RNase Family III)
Argonaute: Central Component of the RNA-Induced Silencing Complex (RISC)
One strand of the dsRNA produced by Dicer is retained in the RISC complex in association with Argonaute
ARGONAUTE PROTEIN :
1.PAZ(PIWI/Argonaute/ Zwille)- Recognition of target MRNA
2.PIWI (p-element induced wimpy Testis)- breaks Phosphodiester bond of mRNA.)RNAse H activity.
MiRNA:
The Double-stranded RNAs are naturally produced in eukaryotic cells during development, and they have a key role in regulating gene expression .
Multi-source connectivity as the driver of solar wind variability in the heli...Sérgio Sacani
The ambient solar wind that flls the heliosphere originates from multiple
sources in the solar corona and is highly structured. It is often described
as high-speed, relatively homogeneous, plasma streams from coronal
holes and slow-speed, highly variable, streams whose source regions are
under debate. A key goal of ESA/NASA’s Solar Orbiter mission is to identify
solar wind sources and understand what drives the complexity seen in the
heliosphere. By combining magnetic feld modelling and spectroscopic
techniques with high-resolution observations and measurements, we show
that the solar wind variability detected in situ by Solar Orbiter in March
2022 is driven by spatio-temporal changes in the magnetic connectivity to
multiple sources in the solar atmosphere. The magnetic feld footpoints
connected to the spacecraft moved from the boundaries of a coronal hole
to one active region (12961) and then across to another region (12957). This
is refected in the in situ measurements, which show the transition from fast
to highly Alfvénic then to slow solar wind that is disrupted by the arrival of
a coronal mass ejection. Our results describe solar wind variability at 0.5 au
but are applicable to near-Earth observatories.
Earliest Galaxies in the JADES Origins Field: Luminosity Function and Cosmic ...Sérgio Sacani
We characterize the earliest galaxy population in the JADES Origins Field (JOF), the deepest
imaging field observed with JWST. We make use of the ancillary Hubble optical images (5 filters
spanning 0.4−0.9µm) and novel JWST images with 14 filters spanning 0.8−5µm, including 7 mediumband filters, and reaching total exposure times of up to 46 hours per filter. We combine all our data
at > 2.3µm to construct an ultradeep image, reaching as deep as ≈ 31.4 AB mag in the stack and
30.3-31.0 AB mag (5σ, r = 0.1” circular aperture) in individual filters. We measure photometric
redshifts and use robust selection criteria to identify a sample of eight galaxy candidates at redshifts
z = 11.5 − 15. These objects show compact half-light radii of R1/2 ∼ 50 − 200pc, stellar masses of
M⋆ ∼ 107−108M⊙, and star-formation rates of SFR ∼ 0.1−1 M⊙ yr−1
. Our search finds no candidates
at 15 < z < 20, placing upper limits at these redshifts. We develop a forward modeling approach to
infer the properties of the evolving luminosity function without binning in redshift or luminosity that
marginalizes over the photometric redshift uncertainty of our candidate galaxies and incorporates the
impact of non-detections. We find a z = 12 luminosity function in good agreement with prior results,
and that the luminosity function normalization and UV luminosity density decline by a factor of ∼ 2.5
from z = 12 to z = 14. We discuss the possible implications of our results in the context of theoretical
models for evolution of the dark matter halo mass function.
Richard's entangled aventures in wonderlandRichard Gill
Since the loophole-free Bell experiments of 2020 and the Nobel prizes in physics of 2022, critics of Bell's work have retreated to the fortress of super-determinism. Now, super-determinism is a derogatory word - it just means "determinism". Palmer, Hance and Hossenfelder argue that quantum mechanics and determinism are not incompatible, using a sophisticated mathematical construction based on a subtle thinning of allowed states and measurements in quantum mechanics, such that what is left appears to make Bell's argument fail, without altering the empirical predictions of quantum mechanics. I think however that it is a smoke screen, and the slogan "lost in math" comes to my mind. I will discuss some other recent disproofs of Bell's theorem using the language of causality based on causal graphs. Causal thinking is also central to law and justice. I will mention surprising connections to my work on serial killer nurse cases, in particular the Dutch case of Lucia de Berk and the current UK case of Lucy Letby.
(May 29th, 2024) Advancements in Intravital Microscopy- Insights for Preclini...Scintica Instrumentation
Intravital microscopy (IVM) is a powerful tool utilized to study cellular behavior over time and space in vivo. Much of our understanding of cell biology has been accomplished using various in vitro and ex vivo methods; however, these studies do not necessarily reflect the natural dynamics of biological processes. Unlike traditional cell culture or fixed tissue imaging, IVM allows for the ultra-fast high-resolution imaging of cellular processes over time and space and were studied in its natural environment. Real-time visualization of biological processes in the context of an intact organism helps maintain physiological relevance and provide insights into the progression of disease, response to treatments or developmental processes.
In this webinar we give an overview of advanced applications of the IVM system in preclinical research. IVIM technology is a provider of all-in-one intravital microscopy systems and solutions optimized for in vivo imaging of live animal models at sub-micron resolution. The system’s unique features and user-friendly software enables researchers to probe fast dynamic biological processes such as immune cell tracking, cell-cell interaction as well as vascularization and tumor metastasis with exceptional detail. This webinar will also give an overview of IVM being utilized in drug development, offering a view into the intricate interaction between drugs/nanoparticles and tissues in vivo and allows for the evaluation of therapeutic intervention in a variety of tissues and organs. This interdisciplinary collaboration continues to drive the advancements of novel therapeutic strategies.
Deep Behavioral Phenotyping in Systems Neuroscience for Functional Atlasing a...Ana Luísa Pinho
Functional Magnetic Resonance Imaging (fMRI) provides means to characterize brain activations in response to behavior. However, cognitive neuroscience has been limited to group-level effects referring to the performance of specific tasks. To obtain the functional profile of elementary cognitive mechanisms, the combination of brain responses to many tasks is required. Yet, to date, both structural atlases and parcellation-based activations do not fully account for cognitive function and still present several limitations. Further, they do not adapt overall to individual characteristics. In this talk, I will give an account of deep-behavioral phenotyping strategies, namely data-driven methods in large task-fMRI datasets, to optimize functional brain-data collection and improve inference of effects-of-interest related to mental processes. Key to this approach is the employment of fast multi-functional paradigms rich on features that can be well parametrized and, consequently, facilitate the creation of psycho-physiological constructs to be modelled with imaging data. Particular emphasis will be given to music stimuli when studying high-order cognitive mechanisms, due to their ecological nature and quality to enable complex behavior compounded by discrete entities. I will also discuss how deep-behavioral phenotyping and individualized models applied to neuroimaging data can better account for the subject-specific organization of domain-general cognitive systems in the human brain. Finally, the accumulation of functional brain signatures brings the possibility to clarify relationships among tasks and create a univocal link between brain systems and mental functions through: (1) the development of ontologies proposing an organization of cognitive processes; and (2) brain-network taxonomies describing functional specialization. To this end, tools to improve commensurability in cognitive science are necessary, such as public repositories, ontology-based platforms and automated meta-analysis tools. I will thus discuss some brain-atlasing resources currently under development, and their applicability in cognitive as well as clinical neuroscience.
Observation of Io’s Resurfacing via Plume Deposition Using Ground-based Adapt...Sérgio Sacani
Since volcanic activity was first discovered on Io from Voyager images in 1979, changes
on Io’s surface have been monitored from both spacecraft and ground-based telescopes.
Here, we present the highest spatial resolution images of Io ever obtained from a groundbased telescope. These images, acquired by the SHARK-VIS instrument on the Large
Binocular Telescope, show evidence of a major resurfacing event on Io’s trailing hemisphere. When compared to the most recent spacecraft images, the SHARK-VIS images
show that a plume deposit from a powerful eruption at Pillan Patera has covered part
of the long-lived Pele plume deposit. Although this type of resurfacing event may be common on Io, few have been detected due to the rarity of spacecraft visits and the previously low spatial resolution available from Earth-based telescopes. The SHARK-VIS instrument ushers in a new era of high resolution imaging of Io’s surface using adaptive
optics at visible wavelengths.
Cancer cell metabolism: special Reference to Lactate PathwayAADYARAJPANDEY1
Normal Cell Metabolism:
Cellular respiration describes the series of steps that cells use to break down sugar and other chemicals to get the energy we need to function.
Energy is stored in the bonds of glucose and when glucose is broken down, much of that energy is released.
Cell utilize energy in the form of ATP.
The first step of respiration is called glycolysis. In a series of steps, glycolysis breaks glucose into two smaller molecules - a chemical called pyruvate. A small amount of ATP is formed during this process.
Most healthy cells continue the breakdown in a second process, called the Kreb's cycle. The Kreb's cycle allows cells to “burn” the pyruvates made in glycolysis to get more ATP.
The last step in the breakdown of glucose is called oxidative phosphorylation (Ox-Phos).
It takes place in specialized cell structures called mitochondria. This process produces a large amount of ATP. Importantly, cells need oxygen to complete oxidative phosphorylation.
If a cell completes only glycolysis, only 2 molecules of ATP are made per glucose. However, if the cell completes the entire respiration process (glycolysis - Kreb's - oxidative phosphorylation), about 36 molecules of ATP are created, giving it much more energy to use.
IN CANCER CELL:
Unlike healthy cells that "burn" the entire molecule of sugar to capture a large amount of energy as ATP, cancer cells are wasteful.
Cancer cells only partially break down sugar molecules. They overuse the first step of respiration, glycolysis. They frequently do not complete the second step, oxidative phosphorylation.
This results in only 2 molecules of ATP per each glucose molecule instead of the 36 or so ATPs healthy cells gain. As a result, cancer cells need to use a lot more sugar molecules to get enough energy to survive.
Unlike healthy cells that "burn" the entire molecule of sugar to capture a large amount of energy as ATP, cancer cells are wasteful.
Cancer cells only partially break down sugar molecules. They overuse the first step of respiration, glycolysis. They frequently do not complete the second step, oxidative phosphorylation.
This results in only 2 molecules of ATP per each glucose molecule instead of the 36 or so ATPs healthy cells gain. As a result, cancer cells need to use a lot more sugar molecules to get enough energy to survive.
introduction to WARBERG PHENOMENA:
WARBURG EFFECT Usually, cancer cells are highly glycolytic (glucose addiction) and take up more glucose than do normal cells from outside.
Otto Heinrich Warburg (; 8 October 1883 – 1 August 1970) In 1931 was awarded the Nobel Prize in Physiology for his "discovery of the nature and mode of action of the respiratory enzyme.
WARNBURG EFFECT : cancer cells under aerobic (well-oxygenated) conditions to metabolize glucose to lactate (aerobic glycolysis) is known as the Warburg effect. Warburg made the observation that tumor slices consume glucose and secrete lactate at a higher rate than normal tissues.
OSFair2017 Training | Designing & implementing open access, open data & open science policies.
1. Designing and implementing Open Access,
OD and OS policies
Eloy Rodrigues, University of Minho
José Carvalho, University of Minho
Pedro Príncipe, University of Minho
2. Agenda
1. Welcome, introduction to the workshop, introductions from the participants
2. What elements make successful Open Access, Open Data, Open Science
policies and How to design them?
– presentation and discussion
3. How to monitor Open Access, Open Data, Open Science policies
implementation
– use cases and discussion
6. Why do funders define OA and OD policies?
• Better science
• Higher visibility and impact from their funding in
research and society in general
• Improved monitoring and transparency of the results of
funding
• Maximized return on investment
7. 2. What elements make successful Open
Access, Open Data, Open Science
policies and How to design them?
presentation and discussion
8. What make policies successful?
1. Content
2. Definition and Implementation Process
3. Monitoring
9. How to design successful policies?
• Look around and align…
• Make requirements as clear and simple as possible
• Provide support (information, infrastructures, and
services)
• Monitor compliance
• Offer incentives (carrots and sticks…)
11. Policy conditions recorded in ROARMAP:
original set of 13
Condition
Must deposit
Cannot waive deposit
Deposit immediately
Must make item OA
Cannot waive making item OA
Link deposit with research assessment / evaluation
Must make item OA immediately
Permitted embargo period specified (STEM)
Permitted embargo period specified (HaSS)
Must retain rights to make item OA
Cannot waive retention of rights
Age of mandatory policy
Requirement for open licensing
12. Policy conditions: eliminated those with small numbers
Condition
Must deposit
Cannot waive deposit
Deposit immediately
Must make item OA
Cannot waive making item OA
Link deposit with research assessment / evaluation
Must make item OA immediately
Permitted embargo period specified (STEM)
Permitted embargo period specified (HaSS)
Must retain rights to make item OA
Cannot waive retention of rights
Age of mandatory policy
Requirement for open licensing
13. Regression analysis: the final list of
important policy criteria
Must deposit
Cannot waive deposit
Research evaluation
Must make deposit Open Access
Cannot waive making item Open Access
Where rights are retained, this cannot be waived
14. Policy conditions: regression analysis
Condition Correlation with deposit rate
Must deposit ✔
Cannot waive deposit ✔
Must make item OA ✔
Cannot waive making item OA ✔
Link deposit with research assessment / evaluation ✔
Cannot waive retention of rights ✔
15. Correlation with deposit action
Policy criterion Positive correlation Significant
correlation
Must deposit ✔ ✔
Cannot waive deposit ✔ ✔
Link deposit to research evaluation ✔ ✔
Must make deposit Open Access ✔
Cannot waive making item Open Access ✔
Where policy stipulates authors should retain relevant rights,
this cannot be waived
✔
16. Policies with the significant criteria
18 policies
5 funders
13 institutions
17. Policies with the significant criteria
18 policies
5 funders
13 institutions
Must deposit
Cannot waive deposit
Research evaluation
18. Funders
European Commission: Horizon 2020 policy
Austria: FWF (Fonds zur Foederung der Wissenschaftlichen
Forschung)
UK: HEFCE (Higher Education Funding Councils)
US: NIH (National Institutes of Health)
South Africa: National Research Foundation of South Africa
19. Multi-beneficiary General Model
Grant Agreement
29.2 Open access to scientific publications
29.3 Open access to research data
http://ec.europa.eu/research/participants/data/ref/h2020/grants_manual/amga/h2020-amga_en.pdf
20. Grant Agreement: § 29.2 Open access to
scientific publications
Each beneficiary must ensure open access (free of charge, online access for any user) to
all peer-reviewed scientific publications relating to its results.
In particular, it must:
(a) as soon as possible and at the latest on publication, deposit a machine-readable
electronic copy of the published version or final peer-reviewed manuscript accepted
for publication in a repository for scientific publications;
Moreover, the beneficiary must aim to deposit at the same time the research data
needed to validate the results presented in the deposited scientific publications.
(b) ensure open access to the deposited publication — via the repository — at the latest:
(i) on publication, if an electronic version is available for free via the publisher, or
(ii) within six months of publication (twelve months for publications in the social
sciences and humanities) in any other case.
(c) ensure open access — via the repository — to the bibliographic metadata that identify
the deposited publication.
The bibliographic metadata must be in a standard format and must include all of the following:
- the terms ["European Union (EU)" and "Horizon 2020"]["Euratom" and Euratom research and training programme 2014-2018"];
- the name of the action, acronym and grant number;
- the publication date, and length of embargo period if applicable, and
- a persistent identifier.
23. The Content of the Policy Template
The proposed policy is mandatory since research shows that this is
the most effective kind of policy and is the most likely to induce
compliance with the researchers. PASTEUR4OA and other research
shows that if the policy is voluntary, only a small percentage of
researchers is expected to comply. A mandatory policy carries an
obligation for the funder to monitor its uptake and revise, where
necessary, also provisioned in the policy.
24. The Content of the Policy Template
The policy requires self-archiving of peer-reviewed publications in
repositories: therefore it does not interfere with the researchers’
freedom of choosing his/her publication venue (journal, monograph
publishing venue), while at the same time it gives research
institutions the power to manage their own output, using
infrastructures (repositories).
25. The Content of the Policy Template
Self-archiving of final author or publisher version of the work
should take place immediately upon acceptance for publication
and certainly no later than the publication of the work; it is during
this phase that the researchers are more likely to perform this task
since this is the moment when they are dealing with the publication
for the final time. A 6-month or 12-month embargo period for Open
Access to the full text of the publication can be accommodated if it
is a publisher requirement for Science, Technology, Engineering and
Mathematics (STEM) and Social Sciences and Humanities (SSH)
fields, respectively. Publication metadata should be openly
accessible from the outset.
26. The Content of the Policy Template
The policy requires open access to research data that support and
validate publications by archiving them in suitable repositories. This
is a policy modeled on that of the most significant research funders
around the world, such as the European Commission, the NIH, the
NSF, all seven of the UK’s Research Councils, the Gates Foundation,
etc. Exception to this policy should be made when necessary (e.g.
for reasons of security) and explicitly stated in the guidelines
document and in the grant agreement document
27. The Content of the Policy Template
The policy encourages, but does not require, publishing in Open
Access journals or monograph series. It renders article processing
charges (APCs) and book processing charges (BPCs) are eligible
project costs, as well as costs for data management. This entails
setting aside the relevant funds and specifying, in the grant
application guide the amount that can be spent per project. This is a
measure to incentivize the transition to an Open Access publishing
system (vs. a subscription system). The requirement for Open
Access self-archiving still needs to be met.
28. The Content of the Policy Template
The policy requires that all publications in Open Access journals
funded by the funder are licensed under Creative Commons
licenses, CC-BY. This will allow true Open Access, in other words,
legally re-usable publications and research data (the so-called libre-
Open Access). It also recommends CC licenses for items not
published in Open Access but deposited in repositories
(publications, books, data), without determining the precise
licensing terms.
29. The Content of the Policy Template
Compliance with the policy is connected to project reporting,
future funding requests and performance evaluation (where
applicable). Connecting compliance with project reporting, future
funding and performance evaluation is critical in achieving high
rates of compliance.
30. The Content of the Policy Template
The policy effectively requires the author to retain the rights
necessary to make her/his work Open Access under the requested
terms and embargo allowance and deters researchers from the
standard practice of transferring their copyright to publishers. It is
possible for authors to negotiate with publishers, licensing to them
only those rights necessary for the publication, and relevant
resources should be provided for researchers (e.g. negotiation tools,
author’s contract addenda). Authors are requested to seek another
publisher if the proposed publisher does not allow them to meet
the terms raised by the funder.
31. The recommended Open Access policy at a glance
Aligns with the European Commission’s H2020 policy
Mandatory
Requires immediate deposit of research outputs in a repository at
acceptance for publication but respects reasonable embargoes
required by publishers
Encourages publishing in Open Access journals and monographs
Specifies that publishing costs are eligible project costs and grant
money may be spent on them: specifies limits that can be spent per
project or per year and disallows publication in ‘hybrid’ journals
Specifies the licence to be used for Open Access articles
Links compliance with project reporting, future funding requests and
performance evaluation
33. The RECODE ten overarching recommendations:
1) Develop aligned and comprehensive policies for open access to research data.
2) Ensure appropriate funding for open access to research data.
3) Develop policies and initiatives that offer researchers rewards for providing open access to high
quality data.
4) Identify key stakeholders and relevant networks and foster collaborative work for a sustainable
ecosystem for open access to research data.
5) Plan for the long-term, sustainable curation and preservation of open access data.
6) Develop comprehensive and collaborative technical and infrastructure solutions that
afford open access to and long-term preservation of high-quality research data.
7) Develop technical and scientific quality standards for research data.
8) Require the use of harmonized open licensing frameworks.
9) Systematically address legal and ethical issues arising from open access to research data.
10) Support the transition to open research data through curriculum-development and training.
34. RECODE funders specific recommendations:
1. Develop explicit policies for open access to research data with
clear roles and responsibilities.
Policies should be consistent with national priorities and aligned with the
European framework for open access to research data, while also
complementing that for open government data. Provisions should be
made for the necessary resources that will allow policy implementation.
2. Adopt a comprehensive approach in funding the implementation
of open access to and preservation of research data.
Policies will bring the expected results if accompanied by appropriate
funds. Particular attention for funding the development and long term
sustainability of necessary infrastructures; training of researchers,
librarians and other technical staff; innovative actions.
35. RECODE funders specific recommendations:
3. Reinforce the significance of the Data Management Plan (DMP) to
embed and promote data management as a distinct activity within
the research process.
Funder and institutional policies that offer researchers rewards for
providing open access to high quality data are central in the transition
towards open science. Official measures and processes need to be put in
place to include the open sharing of research data in funding.
4. Raise awareness and promote open research data in view of
leading an open science paradigm
The open access ecosystem comprises a diverse group of stakeholders
with multiple and often overlapping functions. To be sustainable,
collaboration is essential...
36. Funding agencies RDM guidelines and requirements
Australian funders address data in
terms of:
• data management plans and
planning,
• data dissemination and
sharing,
• data access and reuse,
• long term data storage.
Data sharing policies of the Public
Health Research Data Forum:
1. Data management plans
2. Time frames
3. Use of public databases and
central repositories
4. Ethics and confidentiality
requirements
5. Compliance
37. Policies Key principles:
(Review of funders’ data sharing policies of the Public Health
Research Data Forum)
Of the 20 organizations that make up the forum,
11 have dedicated policies on data sharing and
management.
1. Data management plans
2. Time frames
3. Use of public databases and central
repositories
4. Ethics and confidentiality
requirements
5. Compliance
38. Policies Key principles:
1. Data management plans
The majority of the policies considered require or recommend a data
management plan to be submitted, as either an integral or recommended part
of a research proposal… most at a minimum require researchers to describe the
expected data outputs of their research, how these will be collected and stored,
and how they will be made available to other researchers.
2. Time frames
The question of whether specific time limitations are placed on
researchers with regard to the sharing of data varies between funders.
Some funders, such state that expected timescales for data sharing
should be built into data sharing plans. However, others make explicit
expectations for timescales.
39. Policies Key principles:
3. Use of public databases and central repositories
Several of the policies reviewed make reference to the use of public databases
and/or repositories for the depositing or storage of data, in order for them to be
freely accessible to other researchers.
4. Ethics and confidentiality requirements
Requirements around ethics and confidentiality, and the protection of research
data containing identifiable patient information. A majority of funders cite the
importance of ethical conduct with regard to data sharing, and of protecting
confidentiality.
5. Compliance
How funders will track and ensure compliance with their polices.
Provision of data sharing measures as part of a data management plan.
40. Concordat on Open Research Data - principles
#1 - Open access to research data is an enabler of high quality research,
a facilitator of innovation and safeguards good research practice.
#2 - There are sound reasons why the openness of research data may
need to be restricted but any restrictions must be justified and
justifiable.
#3 - Open access to research data carries a significant cost, which should
be respected by all parties.
#4 - The right of the creators of research data to reasonable first use is
recognized.
#5 - Use of others’ data should always conform to legal, ethical and
regulatory frameworks including appropriate acknowledgement.
41. Concordat on Open Research Data - principles
#6 - Good data management is fundamental to all stages of the
research process and should be established at the outset.
#7 - Data curation is vital to make data useful for others and for long-
term preservation of data.
#8 - Data supporting publications should be accessible by the
publication date and should be in a citeable form.
#9 - Support for the development of appropriate data skills is
recognised as a responsibility for all stakeholders.
#10 - Regular reviews of progress towards open research data should
be undertaken.
46. Share your views and experience
Do you have (or plan to have)
different requirements? Why?
Do you find challenging to define
and implement the recommended
policies?
47. Policy implementation: main steps
PREPARATION/CONSULTATION PHASE
Researching international policies is essential to assess position and
standing of the funder in terms of policies, infrastructures, practices
and degree of participation in international fora.
Assessment of infrastructure (repository) for deposit in Open Access.
The policy will be strong if, among other things, the infrastructure that
will serve it exists either among all institutions or at the national level.
A national harvester can provide a ‘shop window’ for the funder’s
research, as well as a means of analysing and monitoring the research
it funds. Lack of infrastructures should be addressed.
Assessment of costs and financial planning for the preparation and
implementation of the policy, including funding for infrastructure (if
this is necessary), funding for APCs, research data management,
training and awareness-raising (where applicable).
48. Policy implementation: main steps
POLICY DEVELOPMENT PHASE
Development of policy content
Development of supporting infrastructure.
Development of internal supporting and monitoring mechanism
Preparation of information materials and revision of internal
documents
Revision of existing grant application forms, grant agreements, reporting
forms, etc., according the requirements of the policy
Preparation of policy supporting actions to help with implementation
Guidelines for applicants with clear instructions on what to do to comply
and when and eligible costs
Information materials for grantees on how to comply with the
requirements
Awareness-raising actions (workshops etc)
49. Policy implementation: main steps
POLICY IMPLEMENTATION PHASE
Policy adopted by the Funder. A clear and explicit policy from the
funder should be made publicly available through the funder’s
website as a means of demonstrating the commitment to the
principle of Open Access.
Monitoring of compliance by the funder through reporting and
other means . Measures should be taken (e.g. holding/reducing/
withdrawal of funding) if compliance is not taking place and non-
inclusion of missing deposits in evaluation lists.
Assessment of policy after a couple of years by the funder: revision
where appropriate
50. Policy implementation: useful steps
Assessment of the policies of the European Commission and
comparator organisations internationally
Dialogue and collaborative approach with stakeholders
Establishment of the relevant e-infrastructure (e.g. repository
and/or CRIS/research bibliography)
Formulation of the policy
Guidance and training of researchers in compliance
Provision of incentives and rewards for compliance
Clarification of sanctions for non-compliance
Compliance monitoring mechanism(s)
Provision of resources for the long term sustainability of the
services needed to support the policy
51. Practical checklist
Research and map relevant comparator policies
Involve stakeholders
Formulate the policy
Include the clause in grant agreements
Assess infrastructural provision and plan developments where
necessary
Guidance and support for researchers
Provision for reward for compliance and sanction for non-
compliance
Establish mechanism to monitor compliance
Mechanism to evaluate efficacy of the policy
Resourcing and sustainability plan for supporting the policy
52. 3. How to monitor Open Access, Open Data,
Open Science policies implementation
use cases and discussion
54. Why Monitor Open Science Policies?
Monitoring policy compliance is important because it
enables policymakers to:
(i) assess which authors are adhering to the policy;
(ii) decide whether additional advocacy practices and
communication activities are required to raise awareness
about the policy and increase compliance rates;
(iii) observe whether any additional infrastructure or
tools need to be used to collect evidence on compliance;
55. Why Monitor Open Science Policies?
(iv) determine whether any sanctions need to be
implemented to enforce a systematic compliance with the
policy;
(v) and start the process of assessing the benefits that OA
is bringing to the institution as levels of OA outputs grow.
56. Why Monitor Open Science Policies?
Contribution towards:
- improving policy information;
- advancing collaboration between stakeholders;
- promoting the use of evaluation techniques that
provide feedback to revise policies;
- informing the assessment of the policy impacts (changing
researchers publishing attitudes and behaviors);
- helping to link policies to specific outcomes
57. Why Monitor Open Science Policies?
More importantly, monitoring a policy compliance is key
for universities and funders
‘to account for the outcomes of public spending
and to demonstrate return on research
investment’
59. How to Monitor
The key feature of monitoring compliance is to measure
the proportion of research outputs that have been made
(or will be) Open Access and that effectively comply with
the OA policy requirements.
The compliance can be determined by a specific year or
project, or funding stream.
60. How to Monitor
To monitor compliance with OA policies the process must be able to
identify:
- total number of research outputs subject to the
policy,
- total number of full-text OA research outputs in the
repository,
- the number of embargoed full-text items that will
become OA at a later date,
and whether the research outputs subject to the policy comply with
its requirements
61. How to Monitor
- Monitor compliance with policy by comparing repository
content with indexed records in bibliographic reference
databases such as ISI WoS and Scopus, ...
- Monitor policy in a systematic way
- Involve the researchers / project managers
62. How to Monitor
Identify all references between a publication and a
project that consider the requisites of the AO policy
using:
- automatic processes
- manual searches
- data analysis
72. The FCT OA Mandate (main points)
• Deposit in IR is mandatory
• Allows embargo periods
• Allows APC payments
• Uses Creative Commons licenses
• Aligned internationally
• Defined on an existing infrastructure (RCAAP)
78. 3º - Creative Commons Licence
For publications with APC, the use of Creative Commons
CC-BY license is mandatory.
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Repository
• Deposit
79. FCT set on OAI-PMH
07/09/201779
Repository
• Deposit
80. Requisites
These requisites are additional to DRIVER Guidelines
(mandatory on RCAAP Portal) and use OpenAIRE guidelines
to associate publications with projects.
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81. IMPACT ON SEARCH PORTAL
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83. Impact on RCAAP Search Portal
The monitor of FCT OA Policy
The legal deposit of Thesis & Dissertations on the RCAAP Network
In both cases, the Portal must now manage different types of access types!
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86. Toolbox for Project Pages
Using the Portal information to:
– Report - List of publications to report to FCT Funder
(HTML; CSV;…)
– Widget (integrates the publication list on your blog,
website)
Put’s the information in context!
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87. FCT Scientific
Report
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● Static report – list the
publications of a project
on a specific date (when
generated)
● Automatic Report based
on the publications
deposited on repositories
integrated into RCAAP
Search Portal
89. Filter by project
Filter the list of
results by project,
funding stream or
funder
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91. RCAAP Search Portal API
Created for a generic approach, but allows specific
contexts focus on the monitoring of the FCT AO Mandate
and thesis and dissertations deposit.
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92. Example of Request to the API
API REST with JSON e XML (CERIF-XML)
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93. 07/09/201793
Monitoring all funders (based on
OpenAIRE guidelines)
Export to CSV
8500 FCT funded publications
(3700 in June 2016)
Monitoring Dashboard
95. Reporting
The reporting of publications per project is done
automatically (just copy/paste a link)
In the future, totally automated and integrated on the
Funder applications.
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96. Monitoring
A methodology to analyse/compare the compliance with
the mandate is being defined (based on the experience of
monitoring a institutional mandate).
Several data sources available to search for publications
not deposited (not compliant).
07/09/201796
98. Support Activities
- Webinars
- Documentation on the websites
- Text Mining from OpenAIRE to populate IR’s
- Infographics / Decision Trees
- Helpdesk
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99. Conclusions
With basic updates, and the adoption of guidelines it’s possible to
comply with the funder mandate
Different interfaces (human & machine) available to reach the
information (user interface, oai-pmh, api)
Focus of implementation must be on the Repositories first
The update of the project/scholarship list is very important
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100. Conclusions
This approach allows the development of other applications
(institutional level / funder level / national level)
The same API can be used by different systems (the Curriculum
System uses the same API to identify the projects/scholarship, also
used to monitor the legal deposit of thesis & dissertations)
101. Conclusions !!
- Consider only for the purpose of individual and
institutional monitoring, analysis and evaluation of
research, publications whose metadata and integral texts
are deposited in the institutional repository.
- Transform the institutional repository into the official
and unique source of information on the scientific
production of the institution
102. Share your views and experience
How do you monitor your policies?
What services and tools are
needed/missing for policy
compliance?
103. Further Resources
The PASTEUR4OA project (http://www.pasteur4oa.eu/) provides an
extensive range of briefing papers and Open Access policy
guidelines.
The Toolkit for Research Funders
(http://www.pasteur4oa.eu/resources?qt-resources=9#qt-
resources) comprises essential resources to develop and support
Open Access policies