Search results
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Adding ontology terms
••• advancedenanomapper ontologies -
Tutorial
Browsing the eNanoMapper ontology with BioPortal, AberOWL and Protégé
• beginnernanotoxicology Ontologies BioPortal AberOWL Protégé -
How to make a new pathway for WikiPathways using PathVisio
Systems biology Pathway analysis Network analysis Microarray data analysis Nanomaterials
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How to use the statistics module of ArrayAnalysis.org for statistics analysis of microarray data
ArrayAnalysis.org microarray
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Entering and analysing nano safety data
•• intermediateontologies enanomapper -
Pathway module of ArrayAnalysis.org
Gene Ontology
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Tutorial
Adding ontology terms
••• advancedenanomapper ontologies -
Omics descriptors calculation R package
Gene Ontology
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How to use the AffyQC web tool of ArrayAnalysis.org for quality control and pre-processing of Affymetrix microarray data
Microarray data analysis Quality control and data pre-processing Affymetrix microarrays Systems biology Pathway and network analyis
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RRegrs package
Regression Models
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Tutorial
Adding nanomaterial data
•• intermediateToxicology Database management ontologies enanomapper RDF -
e-learning
Enable upload via FTP
• beginnerGalaxy Server administration data git-gat -
ENA : SARS-CoV-2 Submission Workshop
sequencing data ena archive
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e-learning
Submitting sequence data to ENA
•• intermediateUsing Galaxy and Managing your Data covid19 -
e-learning
Sequence data submission to ENA
• beginnerENA FAIR FAIR Data, Workflows, and Research -
Recorded webinar
Submitting metagenomic data to ENA
Metagenomic sequencing Sequencing
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sib-swiss/ena-seqdata-training
Data management FAIR data Sequencing Next generation sequencing
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Submitting sequence data to ENA
Submitting submission sequence data ENA
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e-learning
Data submission using ENA upload Tool
• beginnerEcology -
slides
Submitting SARS-CoV-2 sequences to ENA
• beginnerUsing Galaxy and Managing your Data -
Submitting, Finding and Downloading Raw Sequencing Data with ENA
• beginnerFAIR data Metadata Data submission -
Recorded webinar
Nucleotide sequencing data submission and retrieval at the ENA
Data architecture, analysis and design Sequencing
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e-learning
European Nucleotide Archive: Quick tour
Nucleic acid sequence Nucleotide sequencing data Raw read data Sequencing ENA
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NanoXtract: Nanomaterials Image Analysis Tool Powered by the Enalos Cloud Platform
• beginnerImage analysis Cloud Computing nanomaterials -
Nanoinformatics Model for Zeta Potential Prediction Powered by Enalos Cloud Platform
• beginnerzeta potential nanomaterials -
Enalos Nanoinformatics Cloud Platform: A Safe-by-Design Tool for Functionalised Nanomaterials
• beginnernanoQSAR nanomaterials -
WEBINAR: Establishing Gen3 to enable better human genome data sharing in Australia
Bioinformatics Genomics Human genomics Digital infrastructure Gen3 Data sharing Data management
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Tutorial
Tutorial on using MPI with containers
•• intermediateMPI Containers Computer Programming Documentation and help -
Tutorial
OpenRiskNet: Ontology Walkthrough and Workshop
• beginnerToxicology Ontology and terminology -
lessons, e-learning
Introduction to Data Management Practices - Data publication
• beginnerData management Open science FAIR data FAIR CONVERGE
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eNanoMapper
eNanoMapper developed a computational infrastructure for toxicological data management of engineered nanomaterials (ENMs) based on open standards, ontologies and an interoperable design to enable a more effective, integrated approach to European research in nanotechnology. eNanoMapper supports...
10 training materialseNanoMapper http://enanomapper.net/ https://tess.elixir-europe.org/content_providers/enanomapper eNanoMapper developed a computational infrastructure for toxicological data management of engineered nanomaterials (ENMs) based on open standards, ontologies and an interoperable design to enable a more effective, integrated approach to European research in nanotechnology. eNanoMapper supports the collaborative safety assessment for ENMs by creating a modular, extensible infrastructure for transparent data sharing, data analysis, and the creation of computational toxicology models for ENMs. eNanoMapper was funded by the European Union’s Seventh Framework Programme for research, technological development and demonstration under grant agreement no 604134. /system/content_providers/images/000/000/092/original/logo.png?1528313779 -
iAnn
iAnn is a portal for enabling collaborative announcement dissemination by providing providing relevant scientific announcements data and software tools to help annotation and curation of scientific announcements.
0 events (3540 past events)iAnn http://iann.pro https://tess.elixir-europe.org/content_providers/iann iAnn is a portal for enabling collaborative announcement dissemination by providing providing relevant scientific announcements data and software tools to help annotation and curation of scientific announcements. /system/content_providers/images/000/000/005/original/itico_logo.png?1469458224 -
Earlham Institute
The Earlham Institute (EI) is a research institute focused on exploring living systems by applying computational science and biotechnology to answer ambitious biological questions and generate enabling resources.
0 events (17 past events)Earlham Institute https://www.earlham.ac.uk/ https://tess.elixir-europe.org/content_providers/earlham-institute The Earlham Institute (EI) is a research institute focused on exploring living systems by applying computational science and biotechnology to answer ambitious biological questions and generate enabling resources. /system/content_providers/images/000/000/145/original/Earlham_Square.png?1612798057 -
Software Sustainability Institute
Since 2010, the Software Sustainability Institute has facilitated the advancement of software in research by cultivating better, more sustainable, research software to enable world-class research (“Better software, better research”).
2 training materials0 events (1 past event)Software Sustainability Institute https://www.software.ac.uk https://tess.elixir-europe.org/content_providers/software-sustainability-institute Since 2010, the Software Sustainability Institute has facilitated the advancement of software in research by cultivating better, more sustainable, research software to enable world-class research (“Better software, better research”). /system/content_providers/images/000/000/656/original/ssi_logo_with_name-small2.png?1663763176 -
EMBL-ABR
EMBL Australia Bioinformatics Resource (EMBL-ABR) is a distributed national research infrastructure providing bioinformatics support to life science researchers in Australia.
EMBL-ABR aims to:- increase Australia’s capacity to collect, integrate, analyse, exploit, share and archive the...
9 training materials0 events (193 past events)EMBL-ABR https://www.embl-abr.org.au/ https://tess.elixir-europe.org/content_providers/embl-abr EMBL Australia Bioinformatics Resource (EMBL-ABR) is a distributed national research infrastructure providing bioinformatics support to life science researchers in Australia. EMBL-ABR aims to: 1. increase Australia’s capacity to collect, integrate, analyse, exploit, share and archive the large heterogeneous data sets now part of modern life sciences research 2. contribute to the development of and provide training in data, tools and platforms to enable Australia’s life science researchers to undertake research in the age of big data 3. showcase Australian research and datasets at an international level 4. enable engagement in international programs that create, deploy and develop best practice approaches to data management, software tools and methods, computational platforms and bioinformatics services. EMBL-ABR is structured as a hub/nodes model, with the Hub located at Melbourne Bioinformatics (formerly VLSCI), University of Melbourne. EMBL-ABR is also currently exploring engagement with the European infrastructure for biological information, ELIXIR, and other relevant international efforts. One of EMBL-ABR Key areas is TRAINING, and as such we are involved in diverse projects relevant for bioinformatics training in Australia, with a current focus on Open Science and Bioinformatics. /system/content_providers/images/000/000/072/original/embl-australia-logo-colour-FIN-e1462860151765.jpg?1488905402 -
University of Cambridge Bioinformatics Training
We offer a broad range of undergraduate and postgraduate hands-on training courses focused on bioinformatics and computational biology. These training activities aim at enabling life scientists to effectively handle and interpret biological data.
4 training materials32 events (773 past events)University of Cambridge Bioinformatics Training http://training.csx.cam.ac.uk/bioinformatics/ https://tess.elixir-europe.org/content_providers/university-of-cambridge-bioinformatics-training We offer a broad range of undergraduate and postgraduate hands-on training courses focused on bioinformatics and computational biology. These training activities aim at enabling life scientists to effectively handle and interpret biological data. /system/content_providers/images/000/000/057/original/logo.png?1477998653 -
Bioconductor
Open development software project, based on the R programming language,
providing tools for the analysis of high-throughput genomic data. The project aims to enable
interdisciplinary research, collaboration and rapid development of scientific...242 training materials0 events (3 past events)Bioconductor https://www.bioconductor.org/help/course-materials/ https://tess.elixir-europe.org/content_providers/bioconductor Open development software project, based on the R programming language, providing tools for the analysis of high-throughput genomic data. The project aims to enable interdisciplinary research, collaboration and rapid development of scientific software. /system/content_providers/images/000/000/106/original/logo_bioconductor.gif?1541131228 -
ELIXIR-SI eLearning Platform (EeLP)
ELIXIR-SI eLearning Platform (EeLP) is a learning management system (LMS) continuously administered and maintained by ELIXIR Slovenia.
EeLP enables all-in-one-place access to materials, tools and services for any course, tutorial or webinar that is hosted on the platform.
6 training materials0 events (8 past events)ELIXIR-SI eLearning Platform (EeLP) https://elixir.mf.uni-lj.si/ https://tess.elixir-europe.org/content_providers/elixir-si-elearning-platfrom-eelp ELIXIR-SI eLearning Platform (EeLP) is a learning management system (LMS) continuously administered and maintained by ELIXIR Slovenia. EeLP enables all-in-one-place access to materials, tools and services for any course, tutorial or webinar that is hosted on the platform. /system/content_providers/images/000/000/108/original/eelp-logo-with-slogan.jpg?1544007788 -
Genomics Core KU Leuven/UZ Leuven
The Genomics Core is a facility that advances the development and implementation of novel genomic technologies. The facility provides technological and intellectual support for scientific applications as well as next generation genetic diagnosis.
The genomics core partners within the...0 events (1 past event)Genomics Core KU Leuven/UZ Leuven https://gc.uzleuven.be https://tess.elixir-europe.org/content_providers/genomics-core-ku-leuven-uz-leuven The Genomics Core is a facility that advances the development and implementation of novel genomic technologies. The facility provides technological and intellectual support for scientific applications as well as next generation genetic diagnosis. The genomics core partners within the Universitaire ziekenhuizen KULeuven to enable the BELAC-accredited breast cancer (BRCA) genetic test as well as non-invasive prenatal testing (NIPT). -
QCIF
QCIF (Queensland Cyber Infrastructure Foundation) provides high-performance services, infrastructure and expertise to enable excellence in data-centric, collaborative research.
QCIF operates with its members and partners delivering high-value services to researchers throughout Queensland and...
0 events (2 past events)QCIF https://www.qcif.edu.au https://tess.elixir-europe.org/content_providers/qcif QCIF (Queensland Cyber Infrastructure Foundation) provides high-performance services, infrastructure and expertise to enable excellence in data-centric, collaborative research. QCIF operates with its members and partners delivering high-value services to researchers throughout Queensland and Australia. QCIF’s members are six Queensland universities: The University of Queensland, Queensland University of Technology, Griffith University, James Cook University, CQUniversity, and the University of Southern Queensland. The University of the Sunshine Coast is an associate member. /system/content_providers/images/000/000/122/original/QCIF_RGB_small.jpg?1579735144 -
H3ABioNet
H3ABioNet is a Pan African Bioinformatics Network for the Human Heredity and Health in Africa (H3Africa) consortium.
H3ABioNet was established to develop bioinformatics capacity in Africa and specifically to enable genomics data analysis by H3Africa researchers across the continent. H3ABioNet...0 events (21 past events)H3ABioNet https://h3abionet.org https://tess.elixir-europe.org/content_providers/h3abionet H3ABioNet is a Pan African Bioinformatics Network for the Human Heredity and Health in Africa (H3Africa) consortium. H3ABioNet was established to develop bioinformatics capacity in Africa and specifically to enable genomics data analysis by H3Africa researchers across the continent. H3ABioNet is developing human capacity through training and support for data analysis, and facilitating access to informatics infrastructure by developing or providing access to pipelines and tools for human, microbiome and pathogen genomic data analysis. /system/content_providers/images/000/000/803/original/LOGO-HEADER-2.png?1726047187 -
Thermo Fisher Scientific
Thermo Fisher Scientific is the world leader in serving science, a company with approximately 50,000 employees in 50 countries, creating products and services that enable our customers to make the world healthier, cleaner and safer.
Our EMEA team runs workshops and a bioinformatics career...
0 events (5 past events)Thermo Fisher Scientific https://learn.thermofisher.com/europe/courses/ https://tess.elixir-europe.org/content_providers/thermo-fisher-scientific Thermo Fisher Scientific is the world leader in serving science, a company with approximately 50,000 employees in 50 countries, creating products and services that enable our customers to make the world healthier, cleaner and safer. Our EMEA team runs workshops and a bioinformatics career professional development programme across Europe. Our bioinformatics training programme is not limited to Ion Torrent™ users, but anybody dealing with NGS data analysis. Molecular biologists and bench scientists with an interest to go beyond the graphic interface will enjoy our courses. We offer you a chance to explore the open source world associated to bioinformatics with our experts. /system/content_providers/images/000/000/052/original/Thermo_logo.jpg?1469615410 -
Workflow4metabolomics
In the context of collaboration between metabolomics (MetaboHUB French infrastructure) and bioinformatics platforms (IFB: Institut Français de Bioinformatique), we have developed full LC/MS, FIA-MS, GC/MS and NMR pipelines using Galaxy framework for data analysis including preprocessing,...
Workflow4metabolomics https://workflow4metabolomics.org https://tess.elixir-europe.org/content_providers/workflow4metaolomics In the context of collaboration between metabolomics (MetaboHUB French infrastructure) and bioinformatics platforms (IFB: Institut Français de Bioinformatique), we have developed full LC/MS, FIA-MS, GC/MS and NMR pipelines using Galaxy framework for data analysis including preprocessing, normalization, quality control, statistical analysis (Univariate, Multivariate PLS/OPLS) and annotation steps. Those modular and extensible workflows are composed with existing components (XCMS and CAMERA packages, etc.) but also a whole suite of complementary homemade tools. This implementation is accessible through a web interface, which guarantees the parameters completeness. The advanced features of Galaxy have made possible the integration of components from different sources and of different types. Thus, an extensible Virtual Research Environment (VRE) is offered to metabolomics communities (platforms, end users, etc.), and enables preconfigured workflows sharing for new users, but also experts in the field. /system/content_providers/images/000/000/659/original/17082156.png?1667905557 -
Jalview
Jalview (www.jalview.org) is free-to-use sequence alignment and analysis visualisation software that links genomic variants, protein alignments and 3D structure.
Protein, RNA and DNA data can be directly accessed from public databases (e.g. Pfam, Rfam, PDB, UniProt and ENA etc.). Jalview has...
0 events (2 past events)Jalview http://www.jalview.org/ https://tess.elixir-europe.org/content_providers/jalview Jalview (www.jalview.org) is free-to-use sequence alignment and analysis visualisation software that links genomic variants, protein alignments and 3D structure. Protein, RNA and DNA data can be directly accessed from public databases (e.g. Pfam, Rfam, PDB, UniProt and ENA etc.). Jalview has editing and annotation functionality within a fully integrated, multiple window interface. The sequence alignment programs Clustal Omega, Muscle, MAFFT, ProbCons, T-COFFEE, ClustalW, MSA Prob and GLProb can be run directly from within Jalview. Jalview integrates protein secondary structure prediction (JPred), generate trees, assesses consensus and conservation across sequence families. Journal quality figures can be generated from the results. The Jalview Desktop will run on Mac, MS Windows, Linux and any other platform that supports Java. It has been developed in Geoff Barton's group (www.compbio.dundee.ac.uk) in the School of Life Sciences (www.lifesci.dundee.ac.uk) at the University of Dundee with funding from the BBSRC and the Wellcome Trust. /system/content_providers/images/000/000/091/original/logo-boxg.png?1524735946 -
PINK project
Safe-and-Sustainable-by-Design (SSbD) advanced materials and chemicals (AdMas&Chems) are a central requirement for reaching the ambitious goal of making Europe the first digitally-enabled circular, climate-neutral and sustainable economy. Such new AdMas&Chems need to provide the high...
PINK project https://pink-project.eu https://tess.elixir-europe.org/content_providers/pink-project Safe-and-Sustainable-by-Design (SSbD) advanced materials and chemicals (AdMas&Chems) are a central requirement for reaching the ambitious goal of making Europe the first digitally-enabled circular, climate-neutral and sustainable economy. Such new AdMas&Chems need to provide the high functionality required for their advanced applications, whilst simultaneously exhibiting improved safety and sustainability performances that take into account the complete value chain and life cycle, as outlined in the SSbD framework proposed by the EU Joint Research Centre and adopted in the Commission Recommendation of 8 Dec. 2022. To facilitate adoption by industry and, by doing so, foster the twin green and digital transition of Europe’s economy, PINK’s overarching aim is to produce innovative modelling software and integrated workflows for the development of AdMas&Chems, which are combined into an industry-ready open innovation platform, the PINK In Silico Hub (PINKISH). /system/content_providers/images/000/000/777/original/pink-logo-orange-colorB-500.png?1719919427 -
BY-COVID
BeYond-COVID (BY-COVID) aims to provide comprehensive open data on SARS-CoV-2 and other infectious diseases across scientific, medical, public health and policy domains. It strongly emphasises mobilising raw viral sequences, helping to identify and monitor the spread of SARS-CoV-2 variants. The...
31 training materialsBY-COVID https://by-covid.org https://tess.elixir-europe.org/content_providers/by-covid BeYond-COVID (BY-COVID) aims to provide comprehensive open data on SARS-CoV-2 and other infectious diseases across scientific, medical, public health and policy domains. It strongly emphasises mobilising raw viral sequences, helping to identify and monitor the spread of SARS-CoV-2 variants. The project further accelerates access to SARS-CoV-2 and COVID-19 and linking patient and research data. To ensure interoperability of national and global efforts, BY-COVID enables federated data analysis compliant with data protection regulations, harmonise and manage metadata and sample identifiers, and facilitate long-term cataloguing. In an unprecedented and unique interdisciplinary effort, BY-COVID brings together 53 partners from 19 countries and stakeholders from the biomedical field, hospitals, public health, social sciences and humanities. Ultimately, it will improve European readiness for future pandemics, enhance genomic surveillance and rapid-response capabilities. In addition, BY-COVID serves as a demonstrator of interdisciplinary work across country borders. The project's outputs will allow scientists across multiple domains, including SMEs and industry, to access varied data with the potential to generate new knowledge on infectious diseases. /system/content_providers/images/000/000/810/original/BYCOVID_logo.png?1727690329