The document discusses the THOR project which aims to enable seamless navigation across research spaces by embedding persistent identifier services like ORCID in specific research contexts. It outlines the schedule for presentations from different partners at a THOR workshop, including EBI, PANGAEA, CERN and DataCite. It then discusses EBI's role in the project, including their development of an ORCID integration API and middleware to allow adding ORCIDs to data submission forms across multiple EBI databases like Metabolights and EMPIAR. The next steps involve closing the loop by pushing metadata to ORCID records, extending integrations and aligning different identifier systems.
II-SDV 2016 Michael Iarrobino - Improving Text Mining Results with Access to ...Dr. Haxel Consult
Life science companies increasingly rely on text mining to gain important insights from vast amounts of published information. But researchers struggle to get access to full-text articles for text mining. When they do get the full text they must contend with multiple formats and inconsistent license terms – all of which inhibit text mining efforts. In this presentation, we will describe the value in mining full-text scientific literature and outline the issues researchers face in accessing and licensing this content for commercial purposes. We will provide a walkthrough of Copyright Clearance Center’s (CCC) RightFind™ XML for Mining solution and contrast this with other approaches to solving these time-consuming content and licensing challenges. CCC is the parent organization of RightsDirect.
II-SDV 2016 Aleksandar Kapisoda, Klaus Kater - Deep Web SearchDr. Haxel Consult
Boehringer Ingelheim has been developing dedicated Life Science SEARCHCORPORA for startups, scientific literature and news tracking based on the Web Data Analysis platform Deep SEARCH 9.
Using the Deep SEARCH 9 approach, Boehringer Ingelheim is capable of tapping directly any web resources like online websites data bases, web sites or news feeds.
Use case 1: SEARCHCORPUS® for life science startups:
We find startup information we could not find in public search engines.
Use case 2: Life science news SEARCHCORPUS®:
100s of incoming mails and alerts are processed every day and websites and articles behind the news tags are crawled automatically.
The purpose of these applications is that Scientists can subscribe to the services to have compilations of results of personalized deep searches sent to them automatically or that they can alternatively use faceted search on the life science SEARCHCORPORA interactively.
OpenAIRE Content Providers Community Call, July 1st, 2020
This call was focused on Data Repositories namely the OpenAIRE Research Graph and Data Repositories, the OpenAIRE Content Acquisition Policy, and the Guidelines for Data Archive Managers.
Was also an opportunity to share the most recent updates and novelties in the OpenAIRE Content Provider Dashboard, and to get feedback from community.
Follow the Community activities at https://www.openaire.eu/provide-community-calls
II-SDV 2016 Michael Iarrobino - Improving Text Mining Results with Access to ...Dr. Haxel Consult
Life science companies increasingly rely on text mining to gain important insights from vast amounts of published information. But researchers struggle to get access to full-text articles for text mining. When they do get the full text they must contend with multiple formats and inconsistent license terms – all of which inhibit text mining efforts. In this presentation, we will describe the value in mining full-text scientific literature and outline the issues researchers face in accessing and licensing this content for commercial purposes. We will provide a walkthrough of Copyright Clearance Center’s (CCC) RightFind™ XML for Mining solution and contrast this with other approaches to solving these time-consuming content and licensing challenges. CCC is the parent organization of RightsDirect.
II-SDV 2016 Aleksandar Kapisoda, Klaus Kater - Deep Web SearchDr. Haxel Consult
Boehringer Ingelheim has been developing dedicated Life Science SEARCHCORPORA for startups, scientific literature and news tracking based on the Web Data Analysis platform Deep SEARCH 9.
Using the Deep SEARCH 9 approach, Boehringer Ingelheim is capable of tapping directly any web resources like online websites data bases, web sites or news feeds.
Use case 1: SEARCHCORPUS® for life science startups:
We find startup information we could not find in public search engines.
Use case 2: Life science news SEARCHCORPUS®:
100s of incoming mails and alerts are processed every day and websites and articles behind the news tags are crawled automatically.
The purpose of these applications is that Scientists can subscribe to the services to have compilations of results of personalized deep searches sent to them automatically or that they can alternatively use faceted search on the life science SEARCHCORPORA interactively.
OpenAIRE Content Providers Community Call, July 1st, 2020
This call was focused on Data Repositories namely the OpenAIRE Research Graph and Data Repositories, the OpenAIRE Content Acquisition Policy, and the Guidelines for Data Archive Managers.
Was also an opportunity to share the most recent updates and novelties in the OpenAIRE Content Provider Dashboard, and to get feedback from community.
Follow the Community activities at https://www.openaire.eu/provide-community-calls
Harvesting and semantically tagging media releases from political websites us...Peter Neish
Presented at VALA2012 by Peter Neish on February 9 2012 describing how media releases were automatically harvested from political websites by polling the RSS feeds or relevant sites. Media releases were semantically tagged using the OpenCalais web service.
This webinar will give an overview of Crossref and it’s network of member publishers, along with information on Crossref best practices and the services it's members can make use of. Many of these services have specific relevance to OA content, and the webinar will touch on these, as well as looking into specific aspects of the Crossref metadata that can help dissemination and discoverability of OA content.
Crossref will be joined by two guest speakers - Frontiers will talk about their OA workflows and how Crossref services integrate with these, and James MacGregor from PKP will show participants the Crossref Export/Registration Plugin which journals can enable to deposit DOIs with Crossref and to help them participate in other Crossref services.
Conference Opening Science to Meet Future Challenges, Warsaw, March 11, 2014, organized by Interdisciplinary Centre for Mathematical and Computational Modelling, University of Warsaw.
II-SDV 2016 Irene Kitsara - Patent Landscape Reports and Other WIPO Activitie...Dr. Haxel Consult
WIPO started work in the area of patent analytics in 2010 with a Development Agenda project on “Developing Tools for Access to Patent Information” which resulted in the production of a series of Patent Landscape Reports (WIPO’s patent landscape reports can be found here). These reports, prepared in cooperation with various UN Agencies, non-governmental organizations, research institutes and national IP Offices, analyze patent activity in various topics in the areas of public health, food and agriculture, environment and energy, and disabilities. The key findings are often summarized in an infographic.
In 2013 WIPO started working also on awareness raising and capacity building in the area of patent analytics. Apart from various workshops organized on this topic, WIPO published in September 2015 the “Guidelines for Preparing Patent Landscape Reports”. The Guidelines describe the objectives and motivations for preparing Patent Landscape Reports (PLR) and other types of patent analysis, the tasks associated with patent analytics, as well as the stages in the preparation of PLRs, providing also some insights from WIPO’s experience in the area.
Since 2015 WIPO is exploring open source tools for patent analytics purposes in the framework of the preparation of a Manual on Open Source Tools for Patent Analytics. Open source tools are typically used by other disciplines, usually business/data analysts, statisticians, IT professionals and scientists, rather than with regard to patent data. Nevertheless, in recent years they started emerging as an alternative and/or a complement to ready-to-use tools, providing flexibility and adaptability in different analysis types. In view of the necessary programming related to this type of tools, WIPO developed step-by-step instructions in the Manual with example datasets, and will provide capacity building activities with training on patent analytics for Technology and Innovation Technology Support Centers (TISCs) around the world (for more information on the TISC program please visit www.wipo.int/tisc) .
Text and Non-textual Objects: Seamless access for scientists
Uwe Rosemann (German National Library of Science and Technology (TIB), Germany)
The European High Level Expert Group on Scientific data has formulated the challenges for a scientific infrastructure to be reached by 2030: “Our vision is a scientific e-infrastructure that supports seamless access, use, re-use, and trust of data. In a sense, the physical and technical infrastructure becomes invisible and the data themselves become the infrastructure – a valuable asset, on which science, technology, the economy and society can advance”.
Here, “data” is not restricted to primary data but also includes all non-textual material (graphs, spectra, videos, 3D-objects etc.).
The German National Library of Science and Technology (TIB) has developed a concept for a national competence center for non-textual materials which is now founded by the German State and by the German Federal Countries. The center has to perform the task: developing solutions and services together with the scientific community to make such data available, citable, sharable and usable, including visual search tools and enhanced content-based retrieval.
With solutions such as DataCite and modular development for extraction, indexing and visual searching of new scientific metadata, TIB will accept the challenge. And will make all data accessible to its users fast, convenient and easy to use.
The paper shows what special tools are developed by TIB in the context of scientific AV-media, 3D-objects and research data.
IoT Observatory is a global distributed catalogue of applications and data related to various IoT domains. It supports users from various scientific, administrative and social domains to collaborate, engage and contribute their existing data analytics in a secure way with other users. This can support both academic and industrial domains to create real value of the IoT data in terms of research and economics.
Linked Statistical Data: does it actually pay off?Oscar Corcho
Invited keynote at the ISWC2015 Workshop on Semantics and Statistics (SemStats 2015). http://semstats.github.io/2015/
The release of the W3C RDF Data Cube recommendation was a significant milestone towards improving the maturity of the area of Linked Statistical Data. Many Data Cube-based datasets have been released since then. Tools for the generation and exploitation of such datasets have also appeared. While the benefits for the usage of RDF Data Cube and the generation of Linked Data in this area seem to be clear, there are still many challenges associated to the generation and exploitation of such data. In this talk we will reflect about them, based on our experience on generating and exploiting such type of data, and hopefully provoke some discussion about what the next steps should be.
Office 365 and SharePoint Connect 2019 - Dispose with careAlbert Hoitingh
This is the presentation used for Office 365 and SharePoint Connect 2019 in Haarlem. In this session, I explained the record management options in Office 365 - including labels, fileplans, disposition workflows and more. The presentation ends with an overview of things to consider when implementing these options.
Open Source Reference Desk Software at the Victorian Parliamentary LibraryPeter Neish
Presentation given February 7 2012 at VALA2012 by Robin Gallagher and Peter Neish. Outlines the web-based reference desk software developed by the Victorian Parliamentary Library.
Harvesting and semantically tagging media releases from political websites us...Peter Neish
Presented at VALA2012 by Peter Neish on February 9 2012 describing how media releases were automatically harvested from political websites by polling the RSS feeds or relevant sites. Media releases were semantically tagged using the OpenCalais web service.
This webinar will give an overview of Crossref and it’s network of member publishers, along with information on Crossref best practices and the services it's members can make use of. Many of these services have specific relevance to OA content, and the webinar will touch on these, as well as looking into specific aspects of the Crossref metadata that can help dissemination and discoverability of OA content.
Crossref will be joined by two guest speakers - Frontiers will talk about their OA workflows and how Crossref services integrate with these, and James MacGregor from PKP will show participants the Crossref Export/Registration Plugin which journals can enable to deposit DOIs with Crossref and to help them participate in other Crossref services.
Conference Opening Science to Meet Future Challenges, Warsaw, March 11, 2014, organized by Interdisciplinary Centre for Mathematical and Computational Modelling, University of Warsaw.
II-SDV 2016 Irene Kitsara - Patent Landscape Reports and Other WIPO Activitie...Dr. Haxel Consult
WIPO started work in the area of patent analytics in 2010 with a Development Agenda project on “Developing Tools for Access to Patent Information” which resulted in the production of a series of Patent Landscape Reports (WIPO’s patent landscape reports can be found here). These reports, prepared in cooperation with various UN Agencies, non-governmental organizations, research institutes and national IP Offices, analyze patent activity in various topics in the areas of public health, food and agriculture, environment and energy, and disabilities. The key findings are often summarized in an infographic.
In 2013 WIPO started working also on awareness raising and capacity building in the area of patent analytics. Apart from various workshops organized on this topic, WIPO published in September 2015 the “Guidelines for Preparing Patent Landscape Reports”. The Guidelines describe the objectives and motivations for preparing Patent Landscape Reports (PLR) and other types of patent analysis, the tasks associated with patent analytics, as well as the stages in the preparation of PLRs, providing also some insights from WIPO’s experience in the area.
Since 2015 WIPO is exploring open source tools for patent analytics purposes in the framework of the preparation of a Manual on Open Source Tools for Patent Analytics. Open source tools are typically used by other disciplines, usually business/data analysts, statisticians, IT professionals and scientists, rather than with regard to patent data. Nevertheless, in recent years they started emerging as an alternative and/or a complement to ready-to-use tools, providing flexibility and adaptability in different analysis types. In view of the necessary programming related to this type of tools, WIPO developed step-by-step instructions in the Manual with example datasets, and will provide capacity building activities with training on patent analytics for Technology and Innovation Technology Support Centers (TISCs) around the world (for more information on the TISC program please visit www.wipo.int/tisc) .
Text and Non-textual Objects: Seamless access for scientists
Uwe Rosemann (German National Library of Science and Technology (TIB), Germany)
The European High Level Expert Group on Scientific data has formulated the challenges for a scientific infrastructure to be reached by 2030: “Our vision is a scientific e-infrastructure that supports seamless access, use, re-use, and trust of data. In a sense, the physical and technical infrastructure becomes invisible and the data themselves become the infrastructure – a valuable asset, on which science, technology, the economy and society can advance”.
Here, “data” is not restricted to primary data but also includes all non-textual material (graphs, spectra, videos, 3D-objects etc.).
The German National Library of Science and Technology (TIB) has developed a concept for a national competence center for non-textual materials which is now founded by the German State and by the German Federal Countries. The center has to perform the task: developing solutions and services together with the scientific community to make such data available, citable, sharable and usable, including visual search tools and enhanced content-based retrieval.
With solutions such as DataCite and modular development for extraction, indexing and visual searching of new scientific metadata, TIB will accept the challenge. And will make all data accessible to its users fast, convenient and easy to use.
The paper shows what special tools are developed by TIB in the context of scientific AV-media, 3D-objects and research data.
IoT Observatory is a global distributed catalogue of applications and data related to various IoT domains. It supports users from various scientific, administrative and social domains to collaborate, engage and contribute their existing data analytics in a secure way with other users. This can support both academic and industrial domains to create real value of the IoT data in terms of research and economics.
Linked Statistical Data: does it actually pay off?Oscar Corcho
Invited keynote at the ISWC2015 Workshop on Semantics and Statistics (SemStats 2015). http://semstats.github.io/2015/
The release of the W3C RDF Data Cube recommendation was a significant milestone towards improving the maturity of the area of Linked Statistical Data. Many Data Cube-based datasets have been released since then. Tools for the generation and exploitation of such datasets have also appeared. While the benefits for the usage of RDF Data Cube and the generation of Linked Data in this area seem to be clear, there are still many challenges associated to the generation and exploitation of such data. In this talk we will reflect about them, based on our experience on generating and exploiting such type of data, and hopefully provoke some discussion about what the next steps should be.
Office 365 and SharePoint Connect 2019 - Dispose with careAlbert Hoitingh
This is the presentation used for Office 365 and SharePoint Connect 2019 in Haarlem. In this session, I explained the record management options in Office 365 - including labels, fileplans, disposition workflows and more. The presentation ends with an overview of things to consider when implementing these options.
Open Source Reference Desk Software at the Victorian Parliamentary LibraryPeter Neish
Presentation given February 7 2012 at VALA2012 by Robin Gallagher and Peter Neish. Outlines the web-based reference desk software developed by the Victorian Parliamentary Library.
Science Demonstrator Session: Physics and AstrophysicsEOSCpilot .eu
The main focus of Science Demonstrator sessions is to provide feedback to the EOSC community on the first experience of science demonstrators in the practical use of the emerging EOSC ecosystem.
Each panel will consist of a representative of a Science Demonstrator that will provide an overview of their experiences in the use of emerging EOSC services.
These sessions will help members of the scientific communities understanding the current state of maturity of the EOSC ecosystem and what is obtainable in a field of scientific research. It is also valuable to prospective Service Providers who wish to discover what are the challenges and opportunities that user communities might have to deal with, as a result of the adoption of their services.
This session will focus on Physics and Astrophysics.
Presentation given by Walter Koch and Gerda Koch AIT- Angewandte Informationstechnik Forschungs-GmbH, Graz, Austria
LoCloud Conference
Sharing local cultural heritage online with LoCloud services
Amersfoort, Netherlands
5 February 2016
Presentation of the 2nd Content Providers Community Call, targeting the following topics: 1) OpenAIRE Content provider dashboard updates; Main topic: DSpace-CRIS for OpenAIRE: implementation of the CRIS guidelines and beyond; 3) Community questions & comments.
Science Demonstrator Session: Social and Earth SciencesEOSCpilot .eu
The main focus of Science Demonstrator sessions is to provide feedback to the EOSC community on the first experience of science demonstrators in the practical use of the emerging EOSC ecosystem.
Each panel will consist of a representative of a Science Demonstrator that will provide an overview of their experiences in the use of emerging EOSC services.
These sessions will help members of the scientific communities understanding the current state of maturity of the EOSC ecosystem and what is obtainable in a field of scientific research. It is also valuable to prospective Service Providers who wish to discover what are the challenges and opportunities that user communities might have to deal with, as a result of the adoption of their services.
This session will focus on Social and Earth Sciences.
FAIR Data
Principles
FAIR vs Open Data
Implementing FAIR & FAIRmetrics
FAIRness de ASIO-HERCULES
Research Objects
Definition
Standard RO-CRATE
Usage examples
Cloud Computing Needs for Earth Observation Data Analysis: EGI and EOSC-hubBjörn Backeberg
This presentation was given during the Japan Geosciences Union 2019. Session details can be found at http://www.jpgu.org/meeting_e2019/SessionList_en/detail/M-GI31.htm
FIRE slideshow running on the FIRE (Future Internet Research and Experimentation) booth, organized by all FIRE Support Action projects (AmpliFIRE, ceFIMS-CONNECT, CI-FIRE, ECIAO and FUSION) at the Net Futures 2015 (former FIA) event on 25-26 March 2015 in Brussels, Belgium.
More information: http://www.ict-fire.eu.
Webinar about the Open Access mandate of the EC for Horizon 2020 projects.
* Open revisited & Open Access
* OA policy development in H2020
* Open Access in Horizon 2020
* What does OpenAIRE offer?
* How can OpenAIRE help?
EOSC-hub Contribution to the European Open Science Cloud WGs - TNC 2019, Tallin, June 2019
The presentation provides an overview of the main project contributions to the EOSC working group, including:
(1) Services of the EOSC federating infrastructure that provide the frame through which the research-facing services can be integrated into EOSC (EOSC Portal website and its Marketplace, Federated AAI, Monitoring, Accounting, Helpdesk)
(2) Interoperability guidelines, such as Accounting record standard and exchange guidelines, Incident record management and monitoring information, Service description metadata, Technical interoperability guidelines for generic and thematic services.
(3) Federated service management guidelines and a prototype of the EOSC Service Management System in compliance to the FitSM standard.
OpenAIRE services and tools - presentation at #DI4R2016OpenAIRE
Presentation at Digital Infrastrctures for Research Conference 2016 (Sept. 30). Title: Open Access and Open Data in Horizon 2020: for Research managers and Project Coordinators, by Pedro Príncipe (University of Minho)
In an expert webinar on April 15th 2020 we discussed (in Finnish) how the FAIR data principles affect service development in RDM services. I presented some relevant outputs from the FAIRsFAIR project. These are the slides (in English). The webinar will be published on the fairdata.fi service site https://www.fairdata.fi/koulutus/koulutuksen-tallenteet/
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.
Professional air quality monitoring systems provide immediate, on-site data for analysis, compliance, and decision-making.
Monitor common gases, weather parameters, particulates.
Nutraceutical market, scope and growth: Herbal drug technologyLokesh Patil
As consumer awareness of health and wellness rises, the nutraceutical market—which includes goods like functional meals, drinks, and dietary supplements that provide health advantages beyond basic nutrition—is growing significantly. As healthcare expenses rise, the population ages, and people want natural and preventative health solutions more and more, this industry is increasing quickly. Further driving market expansion are product formulation innovations and the use of cutting-edge technology for customized nutrition. With its worldwide reach, the nutraceutical industry is expected to keep growing and provide significant chances for research and investment in a number of categories, including vitamins, minerals, probiotics, and herbal supplements.
THE IMPORTANCE OF MARTIAN ATMOSPHERE SAMPLE RETURN.Sérgio Sacani
The return of a sample of near-surface atmosphere from Mars would facilitate answers to several first-order science questions surrounding the formation and evolution of the planet. One of the important aspects of terrestrial planet formation in general is the role that primary atmospheres played in influencing the chemistry and structure of the planets and their antecedents. Studies of the martian atmosphere can be used to investigate the role of a primary atmosphere in its history. Atmosphere samples would also inform our understanding of the near-surface chemistry of the planet, and ultimately the prospects for life. High-precision isotopic analyses of constituent gases are needed to address these questions, requiring that the analyses are made on returned samples rather than in situ.
A brief information about the SCOP protein database used in bioinformatics.
The Structural Classification of Proteins (SCOP) database is a comprehensive and authoritative resource for the structural and evolutionary relationships of proteins. It provides a detailed and curated classification of protein structures, grouping them into families, superfamilies, and folds based on their structural and sequence similarities.
The increased availability of biomedical data, particularly in the public domain, offers the opportunity to better understand human health and to develop effective therapeutics for a wide range of unmet medical needs. However, data scientists remain stymied by the fact that data remain hard to find and to productively reuse because data and their metadata i) are wholly inaccessible, ii) are in non-standard or incompatible representations, iii) do not conform to community standards, and iv) have unclear or highly restricted terms and conditions that preclude legitimate reuse. These limitations require a rethink on data can be made machine and AI-ready - the key motivation behind the FAIR Guiding Principles. Concurrently, while recent efforts have explored the use of deep learning to fuse disparate data into predictive models for a wide range of biomedical applications, these models often fail even when the correct answer is already known, and fail to explain individual predictions in terms that data scientists can appreciate. These limitations suggest that new methods to produce practical artificial intelligence are still needed.
In this talk, I will discuss our work in (1) building an integrative knowledge infrastructure to prepare FAIR and "AI-ready" data and services along with (2) neurosymbolic AI methods to improve the quality of predictions and to generate plausible explanations. Attention is given to standards, platforms, and methods to wrangle knowledge into simple, but effective semantic and latent representations, and to make these available into standards-compliant and discoverable interfaces that can be used in model building, validation, and explanation. Our work, and those of others in the field, creates a baseline for building trustworthy and easy to deploy AI models in biomedicine.
Bio
Dr. Michel Dumontier is the Distinguished Professor of Data Science at Maastricht University, founder and executive director of the Institute of Data Science, and co-founder of the FAIR (Findable, Accessible, Interoperable and Reusable) data principles. His research explores socio-technological approaches for responsible discovery science, which includes collaborative multi-modal knowledge graphs, privacy-preserving distributed data mining, and AI methods for drug discovery and personalized medicine. His work is supported through the Dutch National Research Agenda, the Netherlands Organisation for Scientific Research, Horizon Europe, the European Open Science Cloud, the US National Institutes of Health, and a Marie-Curie Innovative Training Network. He is the editor-in-chief for the journal Data Science and is internationally recognized for his contributions in bioinformatics, biomedical informatics, and semantic technologies including ontologies and linked data.
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.
(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.
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.
3. http://project-thor.eu3
Mission
Enable seamless navigation across research space
by:
Embedding PID services in specific research contexts
to:
Make them easily discoverable and usable by researchers
enabling
Clear credit and provenance for research objects
7. http://project-thor.eu9
Genes, genomes & variation
RNA Central
Array
Express
Expression Atlas
Metabolights
PRIDE
ChEMBL ChEBI
Molecular structures
Protein Data Bank in Europe
Electron Microscopy Data
Bank
European Nucleotide Archive
European Variation Archive
European Genome-Phenome Archive
Gene, protein & metabolite expression
Protein sequences, families
Chemical biology
Reactions, interactions & pathways
IntAct Reactome MetaboLights
Systems
BioModels Enzyme Portal BioSamples
Ensembl
Ensembl Genomes
GWAS Catalog
Metagenomics portal
Europe PMC
Gene Ontology
Experimental Factor
Ontology
Literature & ontologies
InterPro Pfam UniProt
8. http://project-thor.eu10
Institution-Specific Requirements
EMBL-EBI
Many submission databases
Knowledge/Added Value databases
International delivery and governance structures
Ecosystem of persistent identifiers
Central ORCID services with an API
No duplication of effort
ORCID integrations with consistent UIs across resources
Easy maintenance of a single service
9. http://project-thor.eu11
Approach
EMBL-EBI
Developed Middleware layer with an integration API library
Middleware mediates communication
between applications
Enables EBI databases to incorporate
ORCID iDs in Web Forms
ORCID-EBI Hub
17. http://project-thor.eu22
Next Steps
Closing the loop:
Pushing metadata to ORCID record
Claiming systems for previously published data
Extending the loop
Integration of data submission with article submission systems
Sharing ORCID information (e.g. based on claims, back to data
resources)
Alignment of identifiers (life sciences data identifiers.org; ORCID
and ISNI)
Enabling data citation
18. http://project-thor.eu23
Impact
Life Sciences: only the beginning. Social lag, not only from
scientists but database providers
Key to integrate with other workflows in particular to boost
impact (forthcoming with future tasks …). Expected:
Datasets claimed to ORCIDs
ORCIDs used more widely in data space
Improved crosslinking between literature and data
Editor's Notes
The slide shows the core resources at the EBI to show the range of data you can access through the EBI.
A service with an API that any number of databases at EBI can use to interface with the ORCID registry to verify user identity and populate existing data submission forms with data from their ORCID profile. Special emphasis was put on the simplicity of integrating existing web forms with the API and two databases, Metabolights and EMPIAR have already integrated this into their workflows. EBI are actively engaging with other life science databases (BioStudies, PDBe, ENA, IntAct, PRIDE and ArrayExpress) and expect these to begin using the API over the next months and years, depending on governance structures and production plans.
