Matches in Nanopublications for { ?s <http://www.w3.org/2000/01/rdf-schema#comment> ?o ?g. }
- 3517 comment "Bioschemas aims to improve data interoperability in the life sciences. It does this by encouraging the use of Schema.org markup within web pages, so that their websites and services contain machine-processable metadata that is consistently structured. This structured information makes it easier to discover, collate and analyse distributed data. As well as extending Schema.org with life sciences specific types, the Bioschemas community has developed a group of specifications that provide guidelines to facilitate a more consistent adoption of Schema.org markup within the life sciences. " assertion.
- 3517 comment "Bioschemas aims to improve data interoperability in the life sciences. It does this by encouraging the use of Schema.org markup within web pages, so that their websites and services contain machine-processable metadata that is consistently structured. This structured information makes it easier to discover, collate and analyse distributed data. As well as extending Schema.org with life sciences specific types, the Bioschemas community has developed a group of specifications that provide guidelines to facilitate a more consistent adoption of Schema.org markup within the life sciences. " assertion.
- FAIRsharing.6s749p comment "Free knowledge database project hosted by Wikimedia and edited by volunteers." assertion.
- FAIRsharing.6s749p comment "Free knowledge database project hosted by Wikimedia and edited by volunteers." assertion.
- FAIRsharing.PB6595 comment "Wikidata is a document-oriented database, focused on items, which represent any kind of topic, concept, or object. Each item is allocated a unique, persistent identifier (a QID), which is a positive integer prefixed with the upper-case letter Q." assertion.
- ESA-OSC comment "A catalog of publicly available geoscience products, datasets and resources developed in the frame of scientific research Projects funded by ESA EO (Earth Observation). Products vary in geographical and temporal extent, production methodology, validation and quality. Please refer to the documentation of each product for details." assertion.
- EarthCODE comment "The EarthCODE Community is ESA's Collaborative Open Development Environment for Earth System Science, designed to advance FAIR Open Science principles across ESA-funded activities and Science Clusters. Serving as a central hub, it integrates tools, data, and services to facilitate seamless research development, execution, and publication, while fostering collaboration and ensuring the long-term preservation and reuse of scientific outputs." assertion.
- DataverseAPI comment "The Dataverse Software APIs allow users to accomplish many tasks such as creating datasets, uploading files, publishing datasets, and much, much more, all without using the Dataverse installation’s web interface." assertion.
- SURFconext comment "SURFconext offers secure access everywhere with one set of credentials. It lets your users log in to all the cloud services your institution uses with one username and password. Both for services that everyone uses and services for small specialist teams. Secure, easy and privacy-friendly." assertion.
- SURF-SRAM comment "SURF Research Access Management is a platform where you as an institution delegate access to research services to researchers. They manage their own research collaborations quickly, easily and securely. This service has been developed based on existing and proven international agreements for authorization and authentication within education and research." assertion.
- CBS-Microdata-Authentication comment "The authentication system of the CBS Remote Access Microdata Service has recently been renewed. This has consequences for the actions that must be performed in order to establish a remote session with CBS. For example, use is made of a VPN in order to connect to the Remote Access Microdata service, and use is made of SMS authorization to set up a session." assertion.
- sadfsa comment "sdfgsd" assertion.
- CLARIN comment "CLARIN is a digital infrastructure offering data, tools and services to support research based on language resources. " assertion.
- CLARIN-B-Center-Status comment "Over the years, the CLARIN infrastructure has developed a set of requirements for datasets and their metadata. These requirements are vetted by the CLARIN Technical Centre Committee in the Checklist for CLARIN B-Centres. To become a CLARIN B centre, a candidate centre does a self-assessment, which gets reviewed by the CLARIN Assessment Committee resulting, in general, in successfully being granted the B centre status. This procedure is repeated every 3 years." assertion.
- _2 comment "Menurut pandangan kami." assertion.
- _2 comment "Menurut pandangan kami." assertion.
- FAIRsharing.41af40 comment "The OECD Omics Reporting Framework (OORF) was developed to increase transparency in the reporting of Omics data used in regulatory toxicology, and aid regulatory uptake while remaining sufficiently flexible to allow technologies to evolve. It is a harmonized combination of the Transcriptomics Reporting Framework (TRF) and a Metabolomics Reporting Framework (MRF), with four types of reporting modules: (i) The Study Summary Reporting Module (SSRM) provides a high-level overview of the regulatory toxicology and Omics experiment, (ii) The Toxicology Experiment Reporting Module (TERM) reports the key descriptors of the in vivo or in vitro toxicology study, (iii) Data Acquisition and Processing Reporting Modules (DAPRM) report descriptions of the Omics assays, data acquisition and associated data, (iv) Data Analysis Reporting Modules (DARM) describe the statistical analysis that has been undertaken in the Omics study. Guidance documents describe each of the reporting modules in detail alongside associated templates are available via the website. " assertion.
- ImmPort-UA comment "The ImmPort User Agreement is a legal document that outlines the terms and conditions for accessing, using, and contributing data to the ImmPort." assertion.
- Computetional-Model comment "Mathematical model that requires computer simulations to study the behavior of a complex system. " assertion.
- Data comment "Facts, measurements, recordings, records, or observations about the world, collected by researchers, that are yet to be processed/interpreted/analysed. Data may be in any format or medium taking the form of writings, notes, numbers, symbols, text, images, films, video, sound recordings, pictorial reproductions, drawings, designs or other graphical representations, procedural manuals, forms, diagrams, work flow charts, equipment descriptions, data files, data processing algorithms, or statistical records." assertion.
- FAIRsharing.w55kwn comment "EASY is the online archiving system of Data Archiving and Networked Services (DANS). EASY provides access to thousands of datasets in the humanities, the social sciences and other disciplines. EASY can also be used for the online depositing of research data. DANS encourages researchers to make there digital research data and related outputs Findable, Accessible, Interoperable and Reusable." assertion.
- BIO comment "BIO (Biographical Ontology) is an ontology/vocabulary specifically created to represent biographical information, including relationships like biological parents, birth, death, marriage, etc. More information can be found in the paper titled An OWL Ontology for Biographical Knowledge. Representing Time-Dependent Factual Knowledge. " assertion.
- BIO comment "BIO (Biographical Ontology) is an ontology/vocabulary specifically created to represent biographical information, including relationships like biological parents, birth, death, marriage, etc. More information can be found in the paper titled An OWL Ontology for Biographical Knowledge. Representing Time-Dependent Factual Knowledge. " assertion.
- HISCLASS comment "HISCLASS is international, created for the purpose of making comparisons across different periods, countries and languages. Furthermore, it is linked to an international standard classification scheme for occupations - HISCO. The chapters in the book show how historical occupational titles classified in HISCO can form the building blocks of a social class scheme for past populations." assertion.
- OCCSCORE comment "OCCSCORE is a constructed variable that assigns occupational income scores to each occupation. The construction of this variable is described in Integrated Occupation and Industry Codes and Occupational Standing Variables in the IPUMS, which users should read before using this variable. OCCSCORE assigns each occupation in all years a value representing the median total income (in hundreds of 1950 dollars) of all persons with that particular occupation in 1950. OCCSCORE thus provides a continuous measure of occupations, according to the economic returns received by people working at them in 1950. The OCCSCORE variable is based on OCC1950. Alternative measures of occupational standing measures that are based on OCC1950 are available in EDSCOR50, ERSCOR50, NPBOSS50, PRESGL, and SEI. " assertion.
- PRESGL comment "PRESGL is a constructed variable that assigns a Siegel prestige score to each occupation using the occupational classification scheme available in OCC1950 variable." assertion.
- PRESGL comment "PRESGL is a constructed variable that assigns a Siegel prestige score to each occupation using the occupational classification scheme available in OCC1950 variable." assertion.
- SEI comment "SEI is a constructed measure that assigns a Duncan Socioeconomic Index (SEI) score to each occupation using the 1950 occupational classification scheme available in the OCC1950 variable. The SEI is a measure of occupational status based upon the income level and educational attainment associated with each occupation in 1950." assertion.
- NPBOSS50 comment "NPBOSS50 is a constructed 4-digit numeric variable that assigns a Nam-Powers-Boyd occupational status score to each occupation using the occupational classification scheme available in OCC1950 variable. NPBOSS50 used year specific data to calculate scores for 1950 onward. However as the earning and education data were not available for pre-1950 censuses, the 1950's NPBOSS50 scores are assigned for cases in pre-1950 censuses." assertion.
- FAIRsharing.oaxyMK comment "The PICO ontology provides a model for describing evidence in a consistent way focusing on complex populations, detailed interventions and their comparisons as well as the outcomes considered. The PICO ontology was originally designed to model the questions asked and answered in Cochrane's systematic reviews. The PICO model can be used to describe healthcare evidence as well as used in other evidence-based domains. It aims to provide a model for describing evidence in a consistent way." assertion.
- Data comment "Facts, measurements, recordings, records, or observations about the world, collected by researchers, that are yet to be processed/interpreted/analysed. Data may be in any format or medium taking the form of writings, notes, numbers, symbols, text, images, films, video, sound recordings, pictorial reproductions, drawings, designs or other graphical representations, procedural manuals, forms, diagrams, work flow charts, equipment descriptions, data files, data processing algorithms, or statistical records." assertion.
- Metadata comment "Data about data. It is data (or information) that defines and describes the characteristics of other data. It is used to improve the understanding and use of the data." assertion.
- Crosswalk comment "A specification consisting of a set of rules that define how (meta)data elements or attributes from one schema can be aligned and mapped to (meta)data elements or attributes in another schema that share the same constraints and thus share the same semantic role." assertion.
- Semantic-Artefact comment "Semantic artefacts are machine readable models of knowledge such as controlled vocabularies, thesauri, and ontologies which facilitate the extraction and representation of knowledge within data sets using annotations or assertions. " assertion.
- Semantic-Artefact comment "Semantic artefacts are machine-actionable formalisations of concepts such as controlled vocabularies, thesauri, and ontologies which facilitate the extraction and representation of knowledge within data sets using annotations or assertions, and enabling sharing and reuse by humans and machines." assertion.
- Metadata-Schema comment "A specification that specifies the structured representation of metadata describing attributes of data or other digital objects in terms of semantics, syntax and optionality." assertion.
- deims comment "DEIMS registry" assertion.
- FAIRsharing.7zffgc comment "The GO Annotation Database (GOA) provides Gene Ontology (GO) annotations to proteins in the UniProt Knowledgebase (UniProtKB), RNA molecules from RNACentral and protein complexes from the Complex Portal. GOA files contain a mixture of manual annotation supplied by members of the Gene Onotology Consortium and computationally assigned GO terms describing gene products. Annotation type is clearly indicated by associated evidence codes and there are links to the source data." assertion.
- DYNCAT comment "The DYNCAT project, coordinated by SINTEF." assertion.
- DYNCAT_KB comment "The Knowledge base for the DYNCAT project is a triplestore hosted by SINTEF and made available to the project participants." assertion.
- DYNCATAnnotationSchema comment "Ontology based annotation schema used to annotate DYNCAT data and models. It is based on the Elementary Multiperspective Material Ontology and relevant doman ontologies." assertion.
- SINTEF_AA comment "Institution provided authentication and authorisation." assertion.
- EMMO comment "EMMO results from a multidisciplinary effort to develop a standard representational framework that is consistent with scientific principles and methodologies. It is based on physics, analytical philosophy and information and communication technologies. EMMO provides a framework for knowledge capture and interoperability in applied science and engineering, especially materials science and manufacturing. It is released under a Creative Commons CC BY 4.0 license." assertion.
- TripperAnnotationSchema comment "Basic annotation schema used in Tripper for handling data and metadata in a knowledge base. Based on DCAT-AP, so compatible with all DCAT-aware services." assertion.
- DYNCATAnnotationSchema comment "Ontology based annotation schema used to annotate DYNCAT data and models. It is based on the Elementary Multiperspective Material Ontology and relevant doman ontologies." assertion.
- EMMO comment "EMMO results from a multidisciplinary effort to develop a standard representational framework that is consistent with scientific principles and methodologies. It is based on physics, analytical philosophy and information and communication technologies. EMMO provides a framework for knowledge capture and interoperability in applied science and engineering, especially materials science and manufacturing. It is released under a Creative Commons CC BY 4.0 license." assertion.
- assertion comment "This is a test Nanopub." assertion.
- Climate_Adaptation_Hub_PT comment "FAIR2Adapt Case study 4 - Developing and testing a FAIR-by-design national adaptation hub" assertion.
- assertion comment "This is a test Nanopub created by the DOIP-Nanopub-Adapter." assertion.
- assertion comment "This is a test Nanopub created by the DOIP-Nanopub-Adapter." assertion.
- scientific-publishing-enough-is-enough comment "Thank you for this very interesting and important post. The problems you describe are definitely real, and we need to address them. It's great to see big entities like Astera and Arcadia taking such a clear stance because solving these problems is difficult. People don't like to let go of their habits, particularly if those habits made them "successful" researchers. It will also be a big transition, and those are difficult and take time, particularly when collective incentives are involved, where individuals are punished by the system if they deviate. I hope this helps gain momentum and that we can all work together to eliminate these vast inefficiencies in current science communication (and thereby science itself). As a specific remark, I would add one point to your "structural features" list. You allude to this point when you mention "linked data" and "narratives", but I think it would deserve to feature as a separate point in this list: - Unstructured information: The scientific findings as well as their context are not represented in a structured manner that would allow for things like automatic and precise aggregations, updates, and question answering. For example, when evidence (or counter-evidence) for a particular relation between a given gene and a certain disease is presented, the entities (gene and disease) and the relation (e.g. "tends to contribute to") should be formally expressed with community-agreed identifiers, and this statement should be linked in an equally structured way to the equiment, scientific method, raw data, significance values, and researchers involved in arriving at that finding. Only then, we can reliably aggregate all these findings (like live literature reviews!), have all researchers interested in these topics be updated in real-time, provide these data as input for future neuro-symbolic AIs, and generally build reliable and provenance-aware tools on top of this (for researchers as well as the general public)." assertion.
- FLSH comment "This is a system based on APIs to access flux towers datasets worldwide that contribute to the FLUXNET package" assertion.
- FLSH comment "This is a system based on APIs to access flux towers datasets worldwide that contribute to the FLUXNET package" assertion.
- FLSH comment "This is a system based on APIs to access flux towers datasets worldwide that contribute to the FLUXNET package" assertion.
- Dataset comment "A collection of data, published or curated by a single agent, and available for access or download in one or more representations." assertion.
- Dataset comment "A dataset is a collection of data, published or curated by a single agent, and available for access or download in one or more representations." assertion.
- Research-Programme comment "A Research Programme is a coordinated set of activities, administered by a scientific funding body or institution, aimed at achieving specific research goals over a defined period. It is usually managed by a small, dedicated team and serves as a platform to support research projects through competitive Calls for Proposals." assertion.
- Research-Programme comment "A research programme is a coordinated set of activities, administered by a scientific funding body or institution, aimed at achieving specific research goals over a defined period. It is usually managed by a small, dedicated team and serves as a platform to support research projects through competitive Calls for Proposals." assertion.
- Data-Management-Plan comment "A data management plan is a statement describing how research data will be managed throughout a specified research project's life cycle - during and after the active phase of the research project - including terms regarding archiving and potential preservation of the data in a data repository. The DMP is considered to be a 'living' document, i.e. one which can be updated when necessary." assertion.
- Method comment "A method is a systematic and documented protocol used to guide and structure controlled research activities. It defines how data are collected, analyzed, interpreted, or validated in order to achieve reliable, repeatable, and objective results." assertion.
- Article comment "An Article is a peer-reviewed scholarly publication that presents the original findings, methodology, and conclusions of a research investigation." assertion.
- Project comment "A project is a time-bound and resource-constrained endeavor undertaken to achieve specific goals or produce defined outputs." assertion.
- RSpaceGID comment "In RSpace, a global ID is a unique identifier assigned to every object in the system. These IDs serve as permanent references that remain consistent throughout an object's lifecycle, regardless of whether it is moved, renamed, or otherwise modified. In contrast to globally unique PIDs, such as DOIs, IGSNs, ePIC, etc., which are provided as globally managed services, the persistence of the RSpace global IDs relies on the management of the individual RSpace instance. As long as an RSpace instance is maintained and accessible, the global IDs remain resolvable." assertion.
- SSMP comment "Metadata policy is not served through the software itself but through its deployment conditions." assertion.
- BPOnto comment "Ontologies within the BioPortal repository have many applications and can for example be used as vocabularies in metadata and data." assertion.
- PubChemCID comment "CID -- PubChem Compound Identification, a non-zero integer PubChem accession identifier for a unique chemical structure. For example, the CID of aspirin is 2244." assertion.
- PubChemCID comment "CID -- PubChem Compound Identification, a non-zero integer PubChem accession identifier for a unique chemical structure. For example, the CID of aspirin is 2244." assertion.
- PubChemCID comment "CID -- PubChem Compound Identification, a non-zero integer PubChem accession identifier for a unique chemical structure. For example, the CID of aspirin is 2244." assertion.
- FAIRsharing.d05nwx comment "IntAct provides a freely available, open source database system and analysis tools for protein interaction data. All interactions are derived from literature curation or direct user submissions and are freely available." assertion.
- OSDR comment "The NASA Open Science Data Repository (OSDR) enables access to space-related data from experiments and missions that investigate biological and health responses of terrestrial life to spaceflight. OSDR comprises GeneLab, Ames Life Sciences Data Archive (ALSDA), and NASA Biological Institutional Scientific Collection (NBISC) projects. The goal of OSDR is to enable multi-modal and multi-hierarchical fundamental space life science data, including ‘omics, phenotypic, physiological, behavioral, hardware, and environmental data, to be reused toward basic science, applied science, and operational outcomes for space exploration and knowledge discovery." assertion.
- NetCDF_CF1.6 comment "NetCDF compliant with Climate and Forecasts (CF) Metadata Convention v1.6" assertion.
- FAIRsharing.91yrz6 comment "MatrixDB stores experimental data established by full-length proteins, matricryptins, glycosaminoglycans, lipids and cations. MatrixDB reports interactions with individual polypeptide chains or with multimers (e.g. collagens, laminins, thrombospondins) when appropriate. Multimers are treated as permanent complexes, referencing EBI identifiers when possible. Human interactions were inferred from non-human homologous interactions when available." assertion.
- HORIZON.2.1.5 comment "Tools, Technologies and Digital Solutions for Health and Care, including personalised medicine. This example nanopub is for testing purposes only as part of a pilot in nanopub-based FDOs at Leiden University. The content herein may not in all cases be accurate and is subject to revision." assertion.
- new-methods comment "This topic aims at supporting activities that are enabling or contributing to one or several expected impacts of destination 5 “Unlocking the full potential of new tools, technologies and digital solutions for a healthy society”. This example nanopub is for testing purposes only as part of a pilot in nanopub-based FDOs at Leiden University. The content herein may not in all cases be accurate and is subject to revision." assertion.
- new-methods comment "This topic aims at supporting activities that are enabling or contributing to one or several expected impacts of destination 5 “Unlocking the full potential of new tools, technologies and digital solutions for a healthy society”. This example nanopub is for testing purposes only as part of a pilot in nanopub-based FDOs at Leiden University. The content herein may not in all cases be accurate and is subject to revision." assertion.
- STAYAHEAD_P comment "Rapid SARS-CoV-2 detection and variant characterization using mass spectrometry coupled to AI predictions of variants of high risk: Staying ahead of the virus" assertion.
- STAYAHEAD_AF comment "The resource centers on the RBD of the ancestral Wuhan-Hu-1 spike protein and includes a systematically generated set of all possible single-point missense variants (3,705 in total). All variants are annotated with structural descriptors derived from AlphaFold-2 predicted structures and augmented with sequence-based biophysical predictors such as disorder, flexibility, and amyloid aggregation propensity from the Bio2Byte suite. To complement structural predictions, empirical measurements of ACE2 binding affinity and surface expression levels were integrated for each 1-step variant, based on deep mutational scanning (DMS) data published by Starr et al. This pairing of theoretical and experimental annotations provides a foundation for analyzing structure–function relationships across the spike mutational landscape and supports downstream applications in protein modeling, variant characterization, and structure-guided surveillance." assertion.
- STAYAHEAD_AF comment "The resource centers on the RBD of the ancestral Wuhan-Hu-1 spike protein and includes a systematically generated set of all possible single-point missense variants (3,705 in total). All variants are annotated with structural descriptors derived from AlphaFold-2 predicted structures and augmented with sequence-based biophysical predictors such as disorder, flexibility, and amyloid aggregation propensity from the Bio2Byte suite. To complement structural predictions, empirical measurements of ACE2 binding affinity and surface expression levels were integrated for each 1-step variant, based on deep mutational scanning (DMS) data published by Starr et al. This pairing of theoretical and experimental annotations provides a foundation for analyzing structure–function relationships across the spike mutational landscape and supports downstream applications in protein modeling, variant characterization, and structure-guided surveillance." assertion.
- STAYAHEAD_M comment "The SARS-CoV-2 outbreak showed the world that we were unable to predict the course of the pandemic. This study is a part of a project that aims at developing methodologies to predict viral variants of high risk in an effort to stay ahead of the next pandemic. We investigate the feasibility of computationally predicting the structures of single mutation variants with AlphaFold-2 and ESMFold and using this information as input to a XGBoost regression model that predicts empirical biophysical properties associated with high-risk Omicron variants. This study illustrates that data intensive regression models when coupled with structure prediction tools, can to contribute to pandemic preparedness." assertion.
- STAYAHEAD_DA1 comment "This article presents an extended dataset description and methodology behind a large number of theoretical and empirical SARS-CoV-2 spike receptor-binding domain (RBD) variants, developed under the STAYAHEAD project for pandemic preparedness. It integrates large-scale in silico structure predictions with empirical biophysical measurements." assertion.
- PPP‑Allowance-Programme comment "Health~Holland’s public–private partnership subsidy, commonly referred to as the PPP-Allowance (previously known as PPS-toeslag or PPS-innovatie) is a funding instrument that operates under the Top Sector Life Sciences & Health, supporting collaborative R&D between academic institutions and industry partners." assertion.
- PPP‑Allowance-Call comment "A call for research project proposals under Health~Holland’s public–private partnership subsidy programme." assertion.
- PPP‑Allowance-Programme comment "Health~Holland’s public–private partnership subsidy, commonly referred to as the PPP-Allowance (previously known as PPS-toeslag or PPS-innovatie) is a funding instrument that operates under the Top Sector Life Sciences & Health, supporting collaborative R&D between academic institutions and industry partners." assertion.
- PPP‑Allowance-Call comment "A call for research project proposals under Health~Holland’s public–private partnership subsidy programme." assertion.
- PPP‑Allowance-Call comment "A call for research project proposals under Health~Holland’s public–private partnership subsidy programme." assertion.
- PPP‑Allowance-Call comment "A call for research project proposals under Health~Holland’s public–private partnership subsidy programme." assertion.
- StayAhead-Project comment "This project will develop rapid SARS-CoV-2 detection and variant characterization using mass spectrometry, FAIR Digital Twins of variants, and coupled to AI predictions of variants of high risk." assertion.
- STAYAHEAD-DMP comment "The data management plan for project StayAhead." assertion.
- STAYAHEAD-Methods1 comment "This is a master's thesis that gives detailed computational and data handeling methods for project StayAhead." assertion.
- STAYAHEAD-Dataset1 comment "SARS-COV-2 Spike protein RBD variant structural features calculated with AlphaFold2" assertion.
- STAYAHEAD-Dataset2 comment "SARS-COV-2 Spike protein RBD variant structural features calculated with ESM" assertion.
- STAYAHEAD-Article1 comment "Structure-Based Prediction of SARS-CoV-2 Variant Properties Using Machine Learning on Mutational Neighborhoods" assertion.
- HORIZON.2.1.5-Programme comment "Tools, Technologies and Digital Solutions for Health and Care, including personalised medicine." assertion.
- HORIZON.2.1.5-Call comment "Call for new methods for the effective use of real-world data and/or synthetic data in regulatory decision-making and/or in health technology assessment" assertion.
- Hypermarker-Project comment "Personalised pharmacometabolomic optimisation of treatment for hypertension" assertion.
- Hypermarker-Project comment "Personalised pharmacometabolomic optimisation of treatment for hypertension" assertion.
- HYPERMARKER-DMP comment "The data management plan for project Hypermarker" assertion.
- HYPERMARKER-Methods1 comment "Sample preparation for Polar Global Untargeted RPLC-ESI-TOF analysis. SOP 124 version: 01" assertion.
- HYPERMARKER-Methods1 comment "Sample preparation for Polar Global Untargeted RPLC-ESI-TOF analysis. SOP 124 version: 01" assertion.
- HYPERMARKER-Methods2 comment "Measurements for Global Polar analysis. SOP124B01 version: 01" assertion.