Register event
10 events found

Content provider: NanoCommons 

  • Ontological Annotation of Datasets: "1st NanoCommons Hackathon"

    9 October 2018

    Athens, Greece

    Ontological Annotation of Datasets: "1st NanoCommons Hackathon" https://tess.elixir-europe.org/events/ontological-annotation-of-datasets The participants will work using their own or mock datasets and search through established ontologies (e.g. eNanoMapper Ontology) for ontological annotations. The participants will also learn how to prepare electronic files (e.g. JSON) containing the raw data and the ontological metadata. 2018-10-09 09:00:00 UTC 2018-10-09 00:00:00 UTC Athens, Greece Athens Greece Ontology and terminology [] [] Biologists workshops_and_courses [] nanotoxicologyresearch dataontologyontologies, enanomapper
  • Annotating Your Experimental Data workshop

    28 April 2020

    Annotating Your Experimental Data workshop https://tess.elixir-europe.org/events/annotating-your-experimental-data-workshop During the full-day online workshop three hackathons w offered and participants learnt to enrich their own (published) data to make it have more impact. Description of experimental data was aligned to community terminology (ontology terms). Experiences were gathered how you can make your research articles findable to other researchers. Participants brought their own published data for the workshop (published is not limited to a journal article, but published in archive). Target audience: Young Scholars (no prior bioinformatics knowledge required), i.e. early-stage and experienced experimentalist researchers Expectation: Willing to learn new things and active participation REGISTER here asap so we can tailor the workshop for your needs: Registration - Hackathon 28th April 2020 2020-04-28 09:00:00 UTC 2020-04-28 16:00:00 UTC www.nanocommons.eu Maastricht UniversityParis Lodron University of Salzburg EU H2020 mixed audiencenanoscientists [] [] FindableInteroperableAccessiblereusabe
  • Online Jaqpot Hackathon

    3 June 2020

    Online Jaqpot Hackathon https://tess.elixir-europe.org/events/online-jaqpot-hackathon Under the subtitle “Take your research from the bench to the community by making your models available as a web service”, attendees learned how to use the Jaqpot suite and python to go from data to model, starting from a common CSV file. Jaqpot is a computational platform for in silico modelling of chemical compounds, that provides both access to its services both over a User Interface (GUI) and an Application Programming Interface (API). It is a cloud-ready application that uses the benefits of Java, R and Python, having incorporated functionality by various established and open-source machine learning and data analysis toolkits, while algorithms in any programming algorithm can be added to Jaqpot. Attached you find the following presentations: 1. Intro to NanoCommons by Martin Himly, PLUS 2. Electronic Lab Notebooks by Iseult Lynch, UoB 3. NanoCommons Knowledgebase by Dieter Maier, Biomax 4. Jaqpot Suite by Philip Doganis, NTUA 2020-06-03 10:00:00 UTC 2020-06-03 13:30:00 UTC NanoCommons [] info@nanocommons.eu [] early stage researchers in nanosafetymodellers for nanosafety predictionexperienced researchers in nanosafety workshops_and_courses [] Modelingdata FAIRnesstoxicity predictione-toolsnanoinformatics
  • Getting into using ELNs for experimental and computational workflows

    14 July 2020

    Getting into using ELNs for experimental and computational workflows https://tess.elixir-europe.org/events/getting-into-using-elns-for-experimental-and-computational-workflows On Tuesday, July 14th 2020, the NanoCommons team, in a joint initiative with the NanoSafety Cluster, is offering an interactive online workshop on implementing Electronic Laboratory Notebooks (ELNs) for nanosafety assessment. Under the subtitle “Getting into using ELNs for experimental and computational workflows”, you will learn how to establish a workflow using Scinote-based electronic lab notebooks. This starts with an introduction to the Scinote inventory and continues with hands-on instructions on how to manage, modify, create, and import protocols for assays. Tasks can be defined and assigned to different users and/or groups. Finally, data (incl. all relevant metadata) can be exported resulting in reports that facilitate data FAIRness. Technology advancement, the emergence of nanoinformatics and FAIR data principles implementation have increased the need for high-quality datasets. To achieve this, the data produced through academia, industry and regulatory bodies needs to be properly curated, to contain sufficient metadata and to be semantically annotated. In this way, data can be accessible and readable from both humans and machines, making it possible to be queried and mined using appropriate systems. One of the main objectives of NanoCommons is to promote the FAIR data principles, cross-project collaboration and data interoperability. This will make it possible to offer the nanosafety community high quality data that can be combined to produce big datasets and be used in novel modelling, machine learning, deep learning and AI techniques. The University of Birmingham (UoB) aims to achieve this by implementing data management processes covering the entire data lifecycle, and by moving the data curation process to the data generators. Capturing the data and metadata as they are produced will save substantial time and resources, while resulting in higher quality datasets. ELNs can be implemented, through cloud services or locally, into everyday experimental practice streamlining and simplifying experimental and computational workflows, practices and data capturing. 2020-07-14 10:00:00 UTC 2020-07-14 14:00:00 UTC NanoCommons [] [] Bench biologistscomputational scientists workshops_and_courses [] electronic lab notebook
  • EU Nanosafety Cluster Education Day @ NanoSAFE 2020 Digital Conference

    16 November 2020

    EU Nanosafety Cluster Education Day @ NanoSAFE 2020 Digital Conference https://tess.elixir-europe.org/events/eu-nanosafety-cluster-education-day-nanosafe-2020-digital-conference Means to achieve this: - to offer a WG-overarching education/communication/discussion event involving the audience via interactive sessions; - to layout ways to go beyond with anything the nanosafety community have learned/developed to serve the emerging topics of Horizon Europe (emerging contaminants incl. microplastics, nanomedicine, safety assessment of novel/innovative/advanced materials for tomorrow along their entire life cycle); - to foster participation in creating better sustainable materials (than e.g. nanosilver in socks), technologies, medical approaches, etc. - to exhibit the perspectives of the NSC Working Groups and the different currently ongoing projects; - to be as interactive as possible using hands-on activities, e.g., by showing how-to operate e-tools, upload/retrieve data to/from repositories & perform models; - to facilitate vivid contribution to discussions using survey tools such as Mentimeter, WooClap, VoxVote, etc. - to offer different perspectives in pro/contra discussions, e.g., by defining challenger - defender roles taken by experts on specific topics or evtl. by dividing attendees into zoom breakout rooms - to show application of emerging NRG frameworks or SbD tools; - to request feedback to user interfaces and enable stakeholder involvement. Program in CET 9:00-9:05 h Welcome of the day by Martin Himly, PLUS (Chair of NSC WG-A) Block 1 - Emerging approaches in nanorisk assessment Session 1: New developments in human hazard assessment - focus on AOP, QSAR, IATA 9:05-9:15 h (i) Session intro on “The Why and What and How of AOPs and various emerging approaches – QSAR, NAMs, IATA” by Session Chair Peter Hoet, KathUni Leuven 9:15-9:30 h (ii) “Beyond chemocentric models: from toxicogenomics to integrated approaches for IATA development” by Dario Greco, Uni Tampere 9:30-9:45 h (iii) AOPs and data integration within Nanosafety” by Penny Nymark, Karolisnka Institutet 9:45-10 h (iv) “Showcasing the AOP-Wiki Resource Description Framework – why nano-AOPs do not exist” by Marvin Martens, Uni Maastricht Short break 10:00-10:05 h Session 2: Exposure & life cycle assessment - determination & modeling 10:05 h Introduction of Session Chair Wouter Fransman, TNO 10:05-10:15 h (i) “Extrapolation (i.e. re-use) of exposure measurement data for similar exposure scenarios and/or similar materials - from regular chemicals to NMs” by Remy Franken, TNO 10:15-10:30 h (ii) “Sharing of release and exposure measurement data” by Camilla Delpivo, Leitat 10:30-10:45 h (iii) “Efficiency testing and implementation of risk management measures to mitigate exposure to NMs” by Henk Goede, TNO 10:45-11:00 h (iv) “Life cycle thinking in nanoform release assessment” by Nathan Bossa, Leitat Virtual coffee, tea & sweets break 11:00 - 11:05 h Block 2 – Data workshop & e-tools for nano & beyond Session 3: Data FAIRness, metadata completeness, scientific quality assurance 11:05-11:10 h (i) Session intro “Experiences from NanoFASE going FAIR” by Session Chair Claus Svendsen, UKCEH 11:10-11:35 h (ii) “When is a metadata set complete?” showcasing (a) specific example(s) with discussion moderated by Thomas Exner, Edelweiss Connect 11:35-12 h (iii) “How to implement (scientific) FAIR principles in my work?” showcasing support in data FAIRness for projects by Ammar Ammar, Uni Maastricht Short break 12:00-12:05 h Session 4: Spectrum of e-tools along data life cycle 12:05-12:15 h (i) Session intro “Data life cycle - generation processing, evaluation, prediction, curation” by Session Chair Iseult Lynch, UoB 12:15-12:25 h (ii) “Showcasing the NanoCommons exposure/risk assessment tool: http://enaloscloud.novamechanics.com/nanocommons/exposure/” by Periklis Tsiros, Harry Sarimveis, NTUA 12:25-12:35 (iii) “Showcasing read-across of NM properties (i.e. zeta potential) to cytotoxicity using NanoSolveIT’s and NanoCommons nanoinformatics models: https://cellviability.cloud.nanosolveit.eu/ and http://enaloscloud.novamechanics.com/nanocommons/mszeta/” by Tassos Papadiamantis, UoB, NovaMechanics, Georgia Melagraki, Antreas Afantitis NovaMechanics 12:35-12:45 (iv) “Showcasing NanoSolveIT’s human exposure assessment: https://aerosol.cloud.nanosolveit.eu/1/” by Nikolaos Cheimarios, Andreas Tsoumanis, Georgia Melagraki, Antreas Afantitis, NovaMechanics 12:45-12:55 h (v) “Idea, methodology, current state of the NanoInformaTIX platform” by Gianpetro Basei, Greendecision 12:55-13:00 h (vi) “Call for action on the Gracious Ontology-Wiki” by Thomas Exner, Edelweiss Connect Working lunch and NSC General Assembly 13:00 – 14:30 h Virtual coffee, tea & sweets break 14:30 – 14:45 h Block 3 - NanoRisk Governance & Safe-by-Design concepts - fit for translation to sustainable development? Session 5: Features of nanoRGFs in development & current NRGC concepts 14:45-14:55 h (i) “What do we need a NRG Council for, who are its stakeholders and what are their needs?” by Marie-Valentin Florin, NanoRigo 14:55-15:05 h (ii) “What can we expect from a future NRG Council and what is the current view on its design” by Rob Aitken, Gov4Nano 15:05-15:25 h (iii) “Screening ethical issues for governance of nanorisk: http://enaloscloud.novamechanics.com/riskgone/thresholdanalysis/” by Ineke Malsh, RiskGone 15:25-15:45 h (iv) “Insight into the nanorisk governance process guided by the NanoRigo NRG framework” by Arto Säämänen, and “Requirements on NRG frameworks by insurances and other societal stakeholders” by Martin Mullins, NanoRigo Short break 15:45-15:50 h Session 6: Elements of SbD for sustainable development & innovation 15:50-15:55 h (i) Session intro “SbD - from philosophy to application” by Session Chair Andrew Nelson (SABYDOMA) 15:55-16:10 h (ii) “Elevator pitches by other 3 NMBP-15 projects” by Soco Vazquez (SABYNA), Carlos Fito (SbD4Nano), Anna Costa (ASINA) 16:10-16:20 h (iii) “Presenting two case studies (CS) to apply different SbD concepts: (a) CS1 on SbD for Covid-19: antiviral coating, strategies for pharma” by Anna Costa; arising questions for SbD application in CS1 16:20-16:30 h (b) “CS2 on SbD in plastics/3D printing/additive manufacturing” by Soco Vazquez; arising questions for SbD applications in CS2 16:30-16:45 h (iv) General discussion of views/feelings moderated by Susanne Resch, BNN, for CS1 and Soco Vazquez, Leitat, for CS2 16:45-16:50 h (v) Session summary & outlook to green innovation jointly by Andrew Nelson and Martin Himly Virtual refreshments, coffee, tea & sweets break 16:50 - 17:00 h The focus of the sessions will be on gains to the entire process, explaining how the tools fit into the wider strategy and what remains after the projects have finished, where to find further info to get things applied in users’ own hands. 2020-11-16 09:00:00 UTC 2020-11-16 18:00:00 UTC Martin Himly, PLUS, Chair of EU NanoSafety Cluster WG-A [] EU H2020 mixed audience meetings_and_conferencesworkshops_and_courses [] []
  • EU Nanosafety Cluster Training Day @ NanoSAFE 2020 Digital Conference

    23 November 2020

    EU Nanosafety Cluster Training Day @ NanoSAFE 2020 Digital Conference https://tess.elixir-europe.org/events/eu-nanosafety-cluster-training-day-nanosafe-2020-digital-conference The training day was divided in two parallel sessions: Hands-on Training on Nanosafety Tools and Models NanoSafety Stakeholder Workshop on analytical tools Regulation and Risk Governance Diplomacy Agenda in CET Room A: Hands-on Training on Nanosafety Tools and Models NanoSafety Stakeholder engagement, Diplomacy, Regulation and Risk Governance 9:00-9:05 Welcome of the day - Martin Himly (Chair of NSC WG-A) 09:05-10:00 In silico tools for Nanosafety Research, Lang Tran (PATROLS) 10:00-12:00 Interactive training on “NanoXtract Image Analysis Tool – NanoCommons Knowledge Base”, Antreas Afantitis, Georgia Melagraki, Dieter Maier, Andreas Tsoumanis, Anastasios Papadiamantis, Iseult Lynch (NanoCommons) 12:00-13:30 Lunch break 13:30-14:30 NanoSolveIT tools for assessment of human and environmental exposure to nanomaterials Antreas Afantitis, Georgia Melagraki, Nikolaos Cheimarios, Alexander Jensen, Andreas Tsoumanis, Samuel Harisson, Pantelis Karatzas, Philip Doganis, Harry Sarimveis, Iseult Lynch (NanoSolveIT) Short break 14:30-14:40 14:40-16:40 Advanced in vitro models of the human lung, GI tract & liver for hazard characterisation, Kirsty Meldrum, Barbara Drasler, Rui-Wen He, Angela Kämpfer, Samantha Victoria Llewellyn, Marije Niemeijer (PATROLS) Short break 16:40-16:50 16:50 - 17:20 Enhanced darkfield microscopy for localization of particles in vivo/in vitro, Trine Berthing (PATROLS) Room B: 10:00-10:05 Welcome of the day - Stella Stoycheva (Co-Chair of NSC WG-A) 10:05-12:00 Stakeholder workshop on analytical tools, Eva Valsami-Jones (ACEnano) 12:00-13:30 Lunch break 13:30-15:00 Introduction to Nanotechnology Regulations & Risk Governance (NSC Working Group G), Steffi Friedrichs (AcumenIST), Keld Alstrup Jensen (caLIBRAte), Monique Groenewold (Gov4Nano), Thomas Kuhlbusch (NanoHarmony) Maria Dusinska (RiskGONE), Janeck Scott-Fordsmand (NanoRIGO) (NANOMET), Miguel Banares (NanoInformaTIX), Antreas Afantitis (NanoSolveIT), Iseult Lynch (NanoCommons) Short break 15:00-15:10 15:10-17:00 h Science Diplomacy: A New Way to Think About Your Role in a Community of Research, Claire Mays (SabyNA, InsSciDE), Guillermo Ort-Gils, Institute for Bioengineering of Catalonia (IBEC) 2020-11-23 09:00:00 UTC 2020-11-23 18:00:00 UTC Martin Himly, PLUS, Chair of EU NanoSafety Cluster WG-A and Stella Stoycheva, Yordas, Co-chair of WG-A [] EU H2020 mixed audienceexperimental nanoscientistsregulatorsmodellers for nanosafety prediction [] [] []
  • Online SPARQL Access to WikiPathways and AOP-Wiki Webinar

    23 March 2021

    Online SPARQL Access to WikiPathways and AOP-Wiki Webinar https://tess.elixir-europe.org/events/online-sparql-access-to-wikipathways-and-aop-wiki-webinar Linked data is basically structured data which is interlinked with other data so it becomes more useful through semantic queries. One way of doing this is through the integration of databases through RDF (Resource Description Framework, the standard model for data interchange) using the newly developed User Interfaces for WikiPathways and AOP-Wiki, providing a variety of useful features to facilitate exploring the databases and linking their data with other resources. The new features include a flexible, auto-populated query panel, SPARQL syntax highlighting, permalinks for SPARQL queries, and full-screen mode. The webinar will focus on the usability of the interface by walking through the various functionalities, and showing a variety of example queries against the WikiPathways and AOP-Wiki data. Furthermore, federated queries across resources will be executed to illustrate the strength of linked data. The webinar is for everyone who wants to learn how to use linked data resources such as WikiPathways and AOP-Wiki, and no preparations are necessary. The expected duration is 45 minutes with time for discussion and support with queries afterwards. 2021-03-23 15:00:00 UTC 2021-03-23 16:00:00 UTC www.nanocommons.eu register for online participation: https://attendee.gotowebinar.com/register/1429123637065255181 register for online participation: https://attendee.gotowebinar.com/register/1429123637065255181 [] EU H2020 mixed audience workshops_and_courses [] adverse outcome pathwaylinked datalife sciencesnanosafetynanoinformaticstoxicologyresource description frameworkSNORQL user interface
  • Online QSAR Modelling Hackathon by Easy Access to Jaqpot

    13 April 2021

    Online QSAR Modelling Hackathon by Easy Access to Jaqpot https://tess.elixir-europe.org/events/online-qsar-modelling-hackathon-by-easy-access-to-jaqpot On Tuesday 13th April 2021, the NanoCommons team, in a joint initiative with the NanoSafety Cluster, will offer an entry-level workshop on in silico nanotoxicology, providing users with easy (no installations required) access to Jaqpot, a powerful and versatile nanotoxicological in silico prediction platform, enabled through powerful Google Colab notebooks. Users will receive training from the expert team from the National Technical University of Athens, who developed the platform, on how to develop a Quantitative Structure-Activity Relationship (QSAR) model and publish it as a web application through the Jaqpot platform with minimal programming skills requirements. Models built on Jaqpot can be used over the graphical user interface or across platforms over the API and can be shared to groups with controlled access and rights. The expected duration is 90 minutes with time for discussion and support during the session (by breakout rooms) and afterwards. Target audience: Bench and computational scientists looking into ways to enrich their data using in silico modelling procedures available to the community. Expectation: Willing to learn new things and active participation in the interactive hackathon. The training ervent will take place on Tuesday April 13th from 15:00 till approximately 16:30 h CEST. Feel free to join and please do not forget to register here: https://attendee.gotowebinar.com/register/2411963887345622287 After registering, you will receive a confirmation email containing information about joining the hackathon. Please, be aware that some personal information may be collected for statistical purposes, however, in a blinded and anonymous way. The workshop will be partially recorded for educational purposes. You will find updates with more information about NanoCommons and training materials here. Feel free to redistribute this information within your projects and networks. We are happy to have as many participants as possible and to help the community with the FAIRification of their data by offering insight into application of in silico QSAR modelling in a more straightforward way. The NanoCommons team will be happy to answer your questions and to guide you in your requests! 2021-04-13 15:00:00 UTC 2021-04-13 17:00:00 UTC www.nanocommons.eu [] EU H2020 NanoCommons mixed audience workshops_and_courses [] nanosafetynanoinformaticstoxicologydata FAIRness
  • Online MIE Prediction Tool Webinar

    18 May 2021

    Online MIE Prediction Tool Webinar https://tess.elixir-europe.org/events/online-mie-prediction-tool-webinar On Tuesday, 18th May 2021, the NanoCommons team, in a joint initiative with the NanoSafety Cluster, will offer an online webinar on the use of their Molecular Initiating Event (MIE) Prediction Tool accessible via the NanoCommons Knowledge Base (NC KB). Introduction and Host: Martin Himly, PLUS and Chair of NanoSafety Cluster WG-A on Education, Training, and Communication Webinar Speaker: Abhijit Dasgupta, UCD Panel for Q+A session: Vadim Zhernovkov and Vladimir Lobaskin, UCD Toxicity testing and regulation of advanced materials at the nanoscale i.e., nano safety, is challenged by the growing number of nanomaterials. The existing animal-reliant toxicity testing tools are onerous in terms of time and resources. There is a need for faster, cheaper, sensitive and effective animal alternatives that are supported by mechanistic evidence. Moreover, there is an urgency for developing alternative testing strategies. The Adverse Outcome Pathway (AOP)-based approaches provide pragmatic insights to promote the development of alternative testing strategies. MIE is the first step in an AOP and can be considered as a chemical interaction between a chemical toxicant and a biological molecule. Key chemical characteristics can be identified and used to model the chemistry of these MIEs. Predicting actual MIEs without time-resolved data establishing the MIE is challenging. Risk assessment requires information on the exposure conditions (e.g., route, dose, duration and frequency) needed to cause an AO. The NanoCommons MIE gene set database (NanoCommons GS-MIE DB) captures: Gene signatures (GS) of MIEs by integrating knowledge from KEGG, REACTOME, GO, WikiPathways public databases; Custom gene sets from published data; To date, manual collection of 132 gene sets representing three different types of MIE actions: MIE1. Disruption of lung surfactant functionality MIE2. Lysosomal destabilization MIE3. Oxidation of cell membrane The expected duration is 60 minutes with time for Q&A session in the end. Target audience: Bench and computational scientists looking into automated ways to enrich the knowledge obtained from their datasets by predicting MIEs for AOP-based toxicity assessment. Expectation: Willing to learn new things and active participation in the interactive webinar. The webinar will take place on Tuesday, May 18th, from 15:00 till 16:00h CEST. Feel free to join and please do not forget to register here: https://attendee.gotowebinar.com/register/6523350125940482062 You can find more information about the webinar here. After registering, you will receive a confirmation email containing information about joining the webinar. Please, be aware that some personal information may be collected for statistical purposes, however, in a blinded and anonymous way. The workshop will be partially recorded for educational purposes. You will find updates with more information about NanoCommons and training materials here. Feel free to redistribute this information within your projects and networks. We are happy to have as many participants as possible and to help the community with the FAIRification of their data by offering an insight into in silico tools offered by the NanoCommons Knowledge Base in an integrated and thus more straightforward way. The NanoCommons team will be happy to answer your questions and to guide you in your requests! 2021-05-18 15:00:00 UTC 2021-05-18 17:00:00 UTC www.nanocommons.eu [] EU H2020 NanoCommons mixed audience workshops_and_courses [] nanosafetydata FAIRnessnanoinformaticstoxicology
  • Risk Governance Session at the 10th Nanosafety Training School

    24 June 2021

    Risk Governance Session at the 10th Nanosafety Training School https://tess.elixir-europe.org/events/10th-nanosafety-training-school Risk Governance - Risk Assessment with Social Dimension Martin Himly, Sabine Hofer and Nobert Hofstaetter (University of Salzburg), as well as Dmitri Ciornii (BAM) and Daan Schuurbiers (DPF) built this session on the question “Risk assessment with social dimension: how does risk governance differ from risk assessment or management?” Starting with introducing the process of risk governance, it was discussed how data support decision-making, what data are needed, and what researchers can do in order to provide such data. This also covered FAIR databases and quality assurance, defined by the Knowledge Readiness Level (KaRL). Next to that, different stakeholder views and how socioeconomic aspects can be included into the risk governance process to warrant inclusiveness for different values into the risk/benefit estimation were discussed. Agenda: - Intro to the Risk Governance process - Interactive session: „What makes RG different from risk assessment?“ - Scientific/technical assessment requires YOUR data – FAIR and quality assured - Intro to data QC: „What is the KaRL concept?“ - Interactive session: Applying KaRL - „What is the social dimension in Risk Governance?“ - Joint Q+A and take-home message 2021-06-24 15:30:00 UTC 2021-06-24 17:00:00 UTC Martin Himly, PLUS, Chair of EU NanoSafety Cluster WG-A [] https://nanorigo.eu/www.nanocommons.eu mixed audience workshops_and_courses [] data FAIRnessmetadata completenessdata qualityNanoCommons Knowledge Basestakeholder viewssocioeconomic aspectsKnowledge Readiness Levels

Note, this map only displays events that have geolocation information in TeSS.
For the complete list of events in TeSS, click the grid tab.