Nanopublications LDF server

Matches in Nanopublications for { ?s <http://www.w3.org/2000/01/rdf-schema#comment> ?o ?g. }

• ImmPort-ELISPOT-Results comment "A template to describe ELISPOT results in a structure that can be interpreted by ImmPort to facilitate searching and display of results. This same template also appears on the web with other names like 'ELISPOT Derived and Interpreted Results'." assertion.
• ImmPort-ELISA-Results comment "A template to describe ELISA results in a structure that can be interpreted by ImmPort to facilitate searching and display of results. This same template also appears on the web other names like 'ELISA Derived and Interpreted Results'." assertion.
• ImmPort-Experiments comment "A legacy template that defines and annotates the mechanistic assays performed on samples, by describing the type of experiment, measurement technique and protocols used in the experiment. The function of this template is also captured in the experiment samples template. This template will continue to be supported for the foreseeable future to support backward compatibility." assertion.
• ImmPort-Experiments comment "A legacy template that defines and annotates the mechanistic assays performed on samples, by describing the type of experiment, measurement technique and protocols used in the experiment. The function of this template is also captured in the experiment samples template. This template will continue to be supported for the foreseeable future to support backward compatibility." assertion.
• ImmPort-Bio-Samples comment "A legacy template that defines and annotates the types of samples derived from study subjects and when during the study schedule the sample was derived. The function of this template is also captured in the experiment samples template. This template will continue to be supported for the foreseeable future to support backward compatibility." assertion.
• ImmPort-Bio-Samples comment "A legacy template that defines and annotates the types of samples derived from study subjects and when during the study schedule the sample was derived. The function of this template is also captured in the experiment samples template. This template will continue to be supported for the foreseeable future to support backward compatibility." assertion.
• ImmPort-Gene-Expression-Experiment comment "A template that captures and annotates samples, reagents, and results from gene expression experiments by linking samples, experiments, and assay results. This template allows users to describe new experiments and biological samples or link existing ImmPort experiments and biological samples with assay results. It offers considerable flexibility in linking new and existing content while adhering to key guidelines: all experiment sample IDs must be unique within the template and not already stored in ImmPort. This same template also appears on the web with other names like 'Gene Expression Experiment Samples'." assertion.
• ImmPort-Genotyping-Experiment comment "A template that captures and annotates samples, reagents, and results from genotyping experiments by linking samples, experiments, and assay results. This template allows users to describe new experiments and biological samples or connect existing ImmPort experiments and biological samples with assay results. It provides flexibility in linking new and existing content while adhering to important guidelines: all experiment sample IDs must be unique within the template and not already stored in ImmPort. This same template also appears on the web with other names like 'Genotyping Experiment Samples'." assertion.
• assertion comment "the morphology-based taxonomic ID as Dimophyes arctica appears to be correct but the sequence is attributable to Agalma elegans so either it was contaminated or there has been a mix-up of samples. Reference Park, N., Yeom, J., Jeong, R. et al. Novel attempt at discrimination of a bullet-shaped siphonophore (Family Diphyidae) using matrix-assisted laser desorption/ionization time of flight mass spectrometry (MALDI-ToF MS). Sci Rep 11, 19077 (2021). https://doi.org/10.1038/s41598-021-98724-z" assertion.
• F1-Explanation comment "Principle F1 states that digital resources, i.e. data and metadata, must be assigned a globally unique and persistent identifier in order to be found and resolved by computers. This is the most fundamental of the FAIR principles, as globally unique and persistent identifiers are essential elements found in all of the other FAIR principles. Globally unique means that the identifier is guaranteed to unambiguously refer to exactly one resource in the world. Therefore, it is insufficient for it to be unique only locally (e.g. unique within a single, local database). Persistence refers to the requirement that this globally unique identifier is never reused in another context, and continues to identify the same resource, even if that resource no longer exists, or moves. In practice, this often involves using a third-party to generate an identifier that has guaranteed longevity and is project/organization-independent." assertion.
• F2-Explanation comment "Whereas principle F1 enables unambiguous identification of resources of interest, principle F2 speaks to the ability to discover a resource of interest through, for example, search or filtering. Digital resources must be described with rich metadata - descriptors of the content of the resource referred to by that identifier. It is hard to generally define the minimally required 'richness' of this metadata, except that the more generous it is, both for humans and computers, the more specifically findable it becomes in refined searches. While other principles speak to the specific kinds of metadata that should be included, principle F2 simply says that a digital resource that is not well-described cannot be accurately discovered. Thus, this principle encourages data providers to consider the various facets of search that might be employed by a user of their data, and to support those users in their discovery of the resource. To enable both global and local search engines to locate a resource, generic and domain-specific descriptors should be provided." assertion.
• F3-Explanation comment "Principle F3 states that any description of a digital resource must contain the identifier of that resource being described. For instance, the description of a computational workflow, should explicitly contain the identifier for that workflow in a manner that is unambiguous. This is especially important where the resource and its metadata are stored independently, but persistently linked, which is generally considered good practice in FAIR. The purpose of this principle is twofold. First, it is perhaps trivial to say that a descriptor should explicitly say what object it is describing; however, there is a second, less-obvious reason for this principle. Many digital objects (such as workflows, as mentioned above) have well-defined structures that may disallow the addition of new fields, including fields that could point to the metadata about that digital object. Therefore, if you have one of these digital objects in-hand, the only way to discover its metadata is through a search using the identifier of that digital object. Thus, by requiring that a metadata descriptor contains the identifier of the thing being described, that identifier may then successfully be used as the search term to discover its metadata record." assertion.
• F4-Explanation comment "Principle F4 states that digital resources must be registered or indexed in a searchable resource. The searchable resource provides the infrastructure by which a metadata record (F1) can be discovered, using either the attributes in that metadata (F2) or the identifier of the data object itself (F3) (doi:10.1162/dint_a_00026)." assertion.
• A1.1-Explanation comment "The protocol (mechanism) by which a digital resource is accessed (e.g. queried) should not pose any bottleneck. It describes an access process, hence does not directly pertain to restrictions that apply to using the resource. The protocols underlying the World-Wide Web, such as HTTP, are an archetype for an open, free, and universally implementable protocol. Such protocols reduce the cost of gaining access to digital resources, because they are well defined and open and allow any individual to create their own standards-compliant implementation. That the use of the protocols is free ensures that those lacking monetary means can equitably access the resource. That it is universally implementable ensures that the technology is available to all (and not restricted, for instance, by country or a sub-community), thus encompassing both the "gratis" and "libre" meaning of "free" (https://dash.harvard.edu/handle/1/4322580)." assertion.
• A1.2-Explanation comment "This principle clearly demonstrates that FAIR is not equal to ‘open’. Some digital resources, such as data that have access restrictions based on ethical, legal or contractual constraints, require additional measures to be accessed. This often pertains to assuring that the access requester is indeed that requester (authentication), that the requester’s profile and credentials match the access conditions of the resource (authorization), and that the intended use matches permitted use cases (e.g. non-commercial purposes only) (see also R1.1, where there are requirements to provide explicit documentation about who may use the data, and for what purposes). At the level of technical implementation, an additional authentication and authorization procedure must be specified, if it is not already defined by the protocol (see A1.1). A requester can be a human or a machine agent. In the latter case it is probably a proxy for a human or an organization to which the authentication and authorization protocol should be applied, in which case, the machine should be expected to present the appropriate credentials. The principle requires that a FAIR resource must provide such a protocol, but the protocol itself is not further specified. In practice, an Internet of FAIR Data and Services cannot function without implementing Authentication and Authorization Infrastructure (AAI, see also https://doi.org/10.1162/dint_a_00029)." assertion.
• A1-Explanation comment "A primary purpose of identifying a digital resource is to simultaneously provide the ability to retrieve the record of that digital resource, in some format, using some clearly-defined mechanism: hence the retrievability is a facet of FAIR Accessibility. Here, the emphasis is on 'ability': there should be no additional barrier retrieval of the record by some agent when its access protocol (A1.1) results in permitted access to that record. Note that the agent may be a machine working behind a firewall, if that agent has been permitted access. For fully mechanized access, this requires that the identifier (F1) follows a globally-accepted schema that is tied to a standardized, high-level communication protocol. The 'standardized communication protocol' is critical here. Its purpose is to provide a predictable way for an agent to access a resource, regardless of whether unrestricted access to the content of the resource is granted or not." assertion.
• A2-Explanation comment "There is a continued focus on keeping relevant digital resources available in the future. Data may no longer be accessible either by design (e.g. a defined life-span within limited financial resources or legal requirements to destroy sensitive data) or by accident. However, given that those data may have been used and are referenced by others, it is important that consumers have, at the very least, access to high quality metadata that describes those resources sufficiently to minimally understand their nature and their provenance, even when the relevant data are not available anymore. This principle relies heavily on the ‘second purpose’ of principle F3 (the metadata record contains the identifier of the data), because in the case where the data record is no longer available, there must be a clear and precise way of discovering its historical metadata record. This aspect of accessibility is further elaborated in the Joint Declaration of Data Citation Principles (doi:10.25490/a97f-egyk)." assertion.
• I1-Explanation comment "Consumers spend a disproportionate amount of time trying to make sense of the digital resources they need and designing accurate ways to combine them. This is most often due to a lack of suitably unambiguous content descriptors, or a lack of such descriptors entirely with respect to non-machine-interpretable data formats such as tables or “generic” XML. Community-defined data exchange formats work reasonably well within their original scope of a few types of data and a relatively homogeneous community, but not well beyond that. This makes interoperation and integration an expensive, often impossible task (even for humans), but also means that machines cannot easily make use of digital resources, which is the primary goal of FAIR. For example, when a machine visits two data files in which a field “temperature” is present, then it will need more contextual descriptions to distinguish between weather data in one file and body temperature measurements in another. Achieving a ‘common understanding’ of digital resources through a globally understood ‘language’ for machines is the purpose of principle I1, with emphasis on ‘knowledge’ and ‘knowledge representation’. This becomes critical when many differently formatted resources need to be visited or combined across organizations and countries and is especially challenging for interdisciplinary studies or for meta-analyses, where results from independent organizations, pertaining to the same topic, must be combined.  In this context, the principle says that producers of digital resources are required to use a language (i.e., a representation of data/knowledge) that has a defined mechanism for mechanized interpretation - a machine-readable “grammar” - where, for example, the difference between an entity, as well as any relevant relationship between entities, is defined in the structure of the language itself. This allows machines to consume the information with at least a basic “understanding” of its content. It is a step towards a common understanding of digital resources by machines, which is a prerequisite for a functional Internet of FAIR Data and Services. Several technologies can be chosen for principle I1." assertion.
• I3-Explanation comment "An important aspect of FAIR is that data or metadata, generally speaking, does not exist in a silo - we must do what is necessary to ensure that the knowledge representing a resource is connected to that of other resources to create a meaningfully interlinked network of data and services. A “qualified reference” is a reference to another resource (i.e., referencing that external resource’s persistent identifier), in which the nature of the relationship is also clearly specified. For instance, when multiple versions of a metadata file are available, it may be useful to provide links to prior or next versions using a named relation such as “prior version” or “next version” (preferably using an appropriate community standard relationship that itself conforms to the FAIR principles). In the case of data, imagine a dataset that specifies the population of cities around the world. To be FAIR with respect to principle I3, the data could contain links to a resource containing city data (e.g. Wikidata: http://wikidata.org/, doi:10.1145/2187980.2188242), geographical and geospatial data, or other related domain resources that are generated by that city, so long as they are properly qualified references using meaningful, clearly-interpretable relationships. It is also important to note that many different metadata files (containers) being FAIR digital resources in themselves, can be pointing to the same ‘target’ object (a data set or a workflow for instance). We can for instance have intrinsic metadata (‘what is this’) and how was it created (provenance type metadata) as well as ‘secondary’ metadata that are for instance created (separately and later in time) by reusers of a particular digital resource. These could all be metadata containers essentially describing the same digital resource from different perspectives. This principle therefore also relates to the good practice to clearly distinguish between metadata (files/containers) and the resources they describe." assertion.
• R1.1-Explanation comment "Digital resources and their metadata must always, without exception, include a license that describes under which conditions the resource can be used, even if that is ‘unconditional’. By default, resources cannot be legally used without this clarity. Note also that a license that cannot be found by an agent, is effectively the same as no license at all. Furthermore, the license may be different for a data resource and the metadata that describes it, which has implications for the indexing of metadata v.v. findability. This is a clear public domain statement, an equivalent such as terms of use or computer protocol to digitally facilitate an operation (for instance a smart contract). Thus, the absence of a license does not indicate “open”, but rather creates legal uncertainty that will deter (in fact, in many cases legally prevent) reuse. Note also that the combination of resources with restrictive license conditions may lead to adverse effects, and ultimately preclude the use of the combined resources. In order to facilitate reuse, the license chosen should be as open as possible." assertion.
• R1.3-Explanation comment "Where community standards or best practices for data archiving and sharing exist, they should be followed. Several disciplinary communities have defined Minimal Information Standards describing most often the minimal set of metadata items required to assess the quality of the data acquisition and processing and to facilitate reproducibility. Such standards are a good start, noting that true (interdisciplinary) reusability will generally require richer metadata. For a list of such standards, consult FAIRsharing (https://fairsharing.org/standards/, doi:10.1038/s41587-019-0080-8)." assertion.
• R1-Explanation comment "On its surface, principle R1 appears very similar to principle F2. However, the rationale behind principle F2 is to enable effective attribute-based search and query (findability), while the focus of R1 is to enable machines and humans to assess if the discovered resource is appropriate for reuse, given a specific task. For example, not all gene expression data for a given locus are relevant to a study of the effects of heat stress.  While inappropriate data may be discovered by the agent’s initial search (principle F2) for expression data about a given gene, here we address the ability to assess the discovered data based on suitability-for-purpose. This reiterates the need for providers to consider not only high-level metadata facets, that will assist in generic search, but also to consider more detailed metadata that will provide much more ‘operational’ instructions for re-use.  In this setting, a wide variety of factors may be needed to determine whether a resource is suitable for inclusion in an analysis, and how to adequately process it. " assertion.
• F1-Choice comment "The community should choose identifier registration service(s) that ensure global uniqueness for its digital resources." assertion.
• F1-Challenge-1 comment "The community should define identifier registration service(s) that ensure global uniqueness for its digital resources." assertion.
• assertion comment ""misidentification of an animal that should have been identied as Vogtia serrata（ Moser, 1925） being reported as V. pentacantha（GenBank ID: AY937362）（personal observation from data in Dunn et al. 2005, unpublished sequences of V. serrata from Japan, and in situ images of the ROV-collected specimen from Monterey Bay）" reported in Lindsay et al. 2015. Corroborated by Phil Pugh on 2015-02-06 Reference Lindsay, D.J., Grossmann, M.M., Nishikawa, J., Bentlage, B. and A.G. Collins (2015) DNA barcoding of pelagic cnidarians: current status and future prospects. Bulletin of the Plankton Society of Japan 62(1): 39–43." assertion.
• assertion comment ""misidentification of an animal that should have been identied as Vogtia serrata（ Moser, 1925） being reported as V. pentacantha（GenBank ID: AY937362）（personal observation from data in Dunn et al. 2005, unpublished sequences of V. serrata from Japan, and in situ images of the ROV-collected specimen from Monterey Bay）" reported in Lindsay et al. 2015. Corroborated by Phil Pugh on 2015-02-06 Reference Lindsay, D.J., Grossmann, M.M., Nishikawa, J., Bentlage, B. and A.G. Collins (2015) DNA barcoding of pelagic cnidarians: current status and future prospects. Bulletin of the Plankton Society of Japan 62(1): 39–43." assertion.
• assertion comment "misidentification of an animal that should have been identied as Vogtia serrata（ Moser, 1925） being reported as V. pentacantha（GenBank ID: AY937362）（personal observation from data in Dunn et al. 2005, unpublished sequences of V. serrata from Japan, and in situ images of the ROV-collected specimen from Monterey Bay）" reported in Lindsay et al. 2015. Corroborated by Phil Pugh on 2015-02-06" assertion.
• assertion comment "misidentification of an animal that should have been identied as Vogtia serrata（ Moser, 1925） being reported as V. pentacantha（GenBank ID: AY937362）（personal observation from data in Dunn et al. 2005, unpublished sequences of V. serrata from Japan, and in situ images of the ROV-collected specimen from Monterey Bay）" reported in Lindsay et al. 2015. Corroborated by Phil Pugh on 2015-02-06" assertion.
• LCA comment "A life cycle assessment (LCA) is a systematic analysis of a product or process's environmental impact throughout its entire life cycle. An LCA is performed in accordance with ISO guidelines and is based on compilation of an inventory of inputs and outputs and calculation of a range of mid-point and/or end-point measures of the environmental impact of the product or process. " assertion.
• ImmPort-Flow-Cytometry-Experiment comment "A template that captures and annotates samples, reagents, and results from flow cytometry experiments by linking samples, experiments, and assay results. This template supports describing new experiments and biological samples or connecting existing ImmPort experiments and biological samples to assay results. It offers flexibility in linking new and existing ImmPort content, with key guidelines to follow: all experiment sample IDs in the template must be unique and not already stored in ImmPort. Both the biological sample and the experiment in the template can be new, or either one can already exist in ImmPort. This same template also appears on the web with other names like 'Flow Cytometry Experiment Samples'." assertion.
• ImmPort-Flow-Cytometry-Derived-Data comment "A template that captures and annotates assay results for a sample by linking the sample, experiment, and interpreted results, providing a standardized format to facilitate the sharing of flow cytometry results." assertion.
• ImmPort-CyTOF-Derived-Data comment "A template that captures and annotates the assay results for a sample by linking sample, experiment, and interpreted results together. It allows users to describe CyTOF (Mass Cytometry) results in a format to facilitate sharing of results." assertion.
• ImmPort-ELISPOT-Reagents comment "A template that defines and annotates the antibody reagents assay platforms for ELISPOT experiment. This same template also appears on the web with other names like 'ELISPOT Reagent'." assertion.
• ImmPort-Control-Samples comment "A template defines and annotates control samples used in MBAA assays. It specifies that control samples, which are not assumed to be of biological origin, must always be new, while the associated experiment can be new or pre-defined. Each control sample serves as a unique key within the template. This same template also appears on the web with other names like 'Control Sample'." assertion.
• ImmPort-Basic-Study-Design comment "A template that describes a study’s essential elements, including title, goals, endpoints, criteria for participation, subject grouping (arms or cohorts), personnel, planned visits, and protocols, all within a single worksheet. It defines key aspects such as purpose, grouping, schedule of events, and references. After defining a study in ImmPort, additional details can be added using the study_design_edit template. The Basic Study Design template is organized into several sections or compound templates to comprehensively capture study design and protocol information." assertion.
• ImmPort-Assessment-Panel comment "A template that captures the User Defined ID, Study ID, and Name for assessment panels, allowing panels to be new or pre-defined in any combination. The only requirement is that the Assessment Panel ID must be unique within the template." assertion.
• ImmPort-Assessment-Component comment "A template that captures essential details for assessment components, including User Defined ID, Assessment Panel ID, Subject ID, Planned Visit ID, Name, and Study Day. Assessments can be new or pre-defined, with any combination allowed, provided the Assessment Panel ID is unique within the template." assertion.
• ImmPort-Assessment comment "A template that defines and annotates assessment panels and their components, which represent responses or results recorded in Case Report Forms (CRFs) linked to a study. It captures essential fields, including Subject ID, Panel ID, User Defined ID, Planned Visit ID, Component Name, and Study Day, allowing users to define both panels and components in a single form. Panels can be new or pre-defined, with any combination allowed as long as the Assessment Panel ID is unique within the template." assertion.
• ImmPort-HLA-Results comment "A template that captures and annotates assay results from HLA typing experiments by linking samples, reagents, and results to experiments. This same template also appears on the web with other names like 'HLA Typing'." assertion.
• ImmPort-Adverse-Events comment "A template that reports adverse events recorded for subjects in a study." assertion.
• ImmPort-Image-Histology-Experiment comment "A template that captures samples, reagents, and results from image histology experiments. It links samples, experiments, and assay results, supporting the description of new or existing experiments and biological samples. Experiment sample IDs must be unique and not already stored in ImmPort. " assertion.
• ImmPort-Intervention comment "A template that captures the study indicated interventions, concomitant medications, and substance use for subjects in a study." assertion.
• ImmPort-CyTOF-Experiment comment "A template to describe and annotate the results of CyTOF (Cytometry by Time-of-Flight) experiments, linking biological samples, experimental details, and assay outcomes in the ImmPort system. The template provides a flexible way to either document new experiments and biological samples or connect existing ones with new assay results. Each experiment sample entry must have a unique ID, ensuring that it is not already stored in ImmPort. " assertion.
• ImmPort-ELISPOT-Experiment comment "A template that defines and annotates the assay results for a sample by linking sample, experiment, and results together. More than one analyte's results per assayed sample may be reported by copying the group of columns 'Analyte', 'Number Of Spots Per Well', and 'Cell number per well Value', 'Cell number per well Unit' needed to describe each assay result. The experiment samples template allows you to describe to ImmPort new experiments and biological samples or link experiments and biological samples stored in ImmPort with assay results. All of the experiment sample IDs in the template must always be unique in the template and must not already be stored in ImmPort. The biological sample and the experiment in the template may be new or they both may be new." assertion.
• ImmPort-ELISA-Experiment comment "A template to capture and annotate the results of an ELISA (Enzyme-Linked Immunosorbent Assay) experiment, linking the biological samples, experiments, and assay results together. This template allows users to describe new experiments and biological samples or link existing ones in ImmPort with their respective assay results. Multiple analyte results can be reported for each assayed sample by duplicating the necessary columns, such as 'Analyte', 'Calculated Concentration Value', and 'Calculated Concentration Unit', to describe each result. Each experiment sample entry must have a unique ID that is not already stored in ImmPort." assertion.
• ImmPort-KIR-Experiment comment "A template that captures samples, reagents, and results from KIR experiments. It links samples, experiments, and assay results, supporting the description of new experiments and biological samples or the integration of assay results with existing ImmPort content. Experiment sample IDs must be unique and not already stored in ImmPort. If the biological sample or experiment is new, required details must be provided, ensuring flexibility in linking new and existing content." assertion.
• ImmPort-KIR-Results comment "A template to describe KIR typing results in a format to facilitate sharing of results. This same template also appears on the web with other names like 'KIR Typing'." assertion.
• ImmPort-Clinical-Lab-Test comment "A template that defines and annotates the lab test panels, the lab tests and results. This template combines the functions of the legacy lab test panels and lab test results templates into a single template. The biological sample and the lab test panel can be either new or pre-defined in this template. Any combination is acceptable. The only restriction is that the biological sample is the key to template and must be unique within the template. This same template also appears on the web with other names like 'Lab Tests'." assertion.
• ImmPort-MMSA-Results comment "A template that describes Metabolomics Mass Spectrometry Assay results in a structure that can be interpreted by ImmPort to facilitate searching and display of results. This same template also appears on the web with other names like 'Mass Spectrometry Metabolomic Results'." assertion.
• ImmPort-MMSA-Experiment comment "A template that captures samples, reagents, and results from metabolomics mass spectrometry experiments. It links samples, experiments, and assay results, allowing for the description of new experiments and biological samples or the integration of assay results with existing ImmPort content. Experiment sample IDs must be unique and not previously stored in ImmPort. If the biological sample or experiment is new, required details must be provided, ensuring flexibility in linking new and existing content. This same template also appears on the web with other names like 'Mass Spectrometry Experiment Sample'." assertion.
• ImmPort-PMSA-Experiment comment "A template that captures samples, reagents, and results from proteomics mass spectrometry experiments. It links samples, experiments, and assay results, enabling the description of new experiments and biological samples or the integration of assay results with existing ImmPort content. Experiment sample IDs must be unique and not previously stored in ImmPort. If the biological sample or experiment is new, required details must be provided, ensuring flexibility in linking new and existing content. This same template also appears on the web with other names like 'Mass Spectrometry Experiment Sample'." assertion.
• ImmPort-PMSA-Results comment "A template that structures proteomics mass spectrometry assay results for interpretation, searching, and display within ImmPort. It links samples, experiments, and results, supporting multiple intensity results per assayed sample. This same template also appears on the web with other names like 'Mass Spectrometry Proteomic Results' and 'Proteomics Mass Spectrometry Assays Results'." assertion.
• ImmPort-MBAA-Experiment comment "A template that captures samples, reagents, treatments, and results from Multiplex Bead Array Assays (MBAA) experiments. It links samples, experiments, and assay results, supporting the description of new experiments and biological samples or the integration of assay results with existing ImmPort content. Experiment sample IDs must be unique and not previously stored in ImmPort. If the biological sample or experiment is new, required details must be provided, ensuring flexibility in linking new and existing content." assertion.
• ImmPort-MBAA-Results comment "A template that describes Multiplex Bead Array Assays (MBAA) results in a structure that can be interpreted by ImmPort to facilitate searching and display of results." assertion.
• ImmPort-NATA-Experiment comment "A template that captures samples, reagents, and results from neutralizing antibody titer experiments. It links samples, experiments, and assay results, supporting multiple analyte results per sample by duplicating relevant columns such as 'Virus Strain' and 'Titration Dilution Value.' The template accommodates new experiments and biological samples or integrates assay results with existing ImmPort content. Experiment sample IDs must be unique and not previously stored in ImmPort, with required details provided for any new biological samples or experiments." assertion.
• ImmPort-Experiment comment "A template that captures samples, reagents, and results for experiment types not characterized by other ImmPort templates. It links samples, experiments, and assay results, supporting the description of new experiments and biological samples or the integration of assay results with existing ImmPort content. Experiment sample IDs must be unique and not previously stored in ImmPort, with required details provided for any new biological samples or experiments. This template ensures flexibility when no specific experiment template is available. This same template also appears on the web with other names like 'Other' and 'Other Experiment Sample'." assertion.
• ImmPort-QRT-PCR-Experiment comment "A template that captures samples, reagents, and results from QRT-PCR experiments. It links samples, experiments, and assay results, supporting multiple analyte results per sample by duplicating columns like 'Entrez Gene ID' and 'Threshold Cycles (Ct).' The template allows for the description of new experiments and biological samples or the integration of assay results with existing ImmPort content. Experiment sample IDs must be unique and not previously stored in ImmPort, with required details provided for any new biological samples or experiments." assertion.
• ImmPort-Edit-Study-Design comment "An optional template that enables updates to a study's design after the initial design is uploaded, including adding files, publications, or subjects. It defines and annotates study elements, such as weblinks and publications, that can be modified or added later. This same template also appears on the web with other names like 'Study Design Edit'." assertion.
• ImmPort-Public-Repository comment "A template that captures information on public repository names and accessions, allowing one or more to be linked to an experiment sample. This same template also appears on the web with other names like 'Public Repositories'." assertion.
• ImmPort-RNA-Sequencing-Results comment "A template that lists and annotates results associated with experiments, including assay outcomes linked to samples and experiments. Results can be in various file formats, such as PDF, Word, or Excel. This same template also appears on the web with other names like 'RNA Sequencing Transcripts Results'." assertion.
• ImmPort-ELISA-Reagents comment "A template that defines and annotates the antibody reagents assay platforms for ELISA experiment. This same template also appears on the web with other names like 'ELISA Reagent'." assertion.
• ImmPort-Protocols comment "A template that lists and annotates protocols associated with lab tests, which may include PDF, Word, Excel, or other file types. It links protocol documents to studies, subjects, biological samples, or experiments. This same template also appears on the web with other names like 'Protocol'." assertion.
• ImmPort-CyTOF-Reagents comment "A template that defines and annotates detailed information about the mass tagged antibody reagents used in a CyTOF (Mass cytometry) experiment. This same template also appears on the web with other names like 'Mass Cytometry Reagent'." assertion.
• ImmPort-NATA-Reagents comment "A template that captures detailed information about the reagents used in neutralizing antibody titer experiments. It defines and annotates reagents, including cell types and antibodies, particularly for experiments employing an ELISA approach. This same template also appears on the web with other names like 'Neutralizing Antibody Titer Reagent'." assertion.
• ImmPort-Flow-Cytometry-Reagents comment "A template that captures detailed information about the antibody reagents used in flow cytometry experiments, defining and annotating their usage. This same template also appears on the web with other names like 'Flow Cytometry Reagent'." assertion.
• ImmPort-RNA-Sequencing-Reagents comment "A template that captures captures detailed information about the reagents used in RNA sequencing experiments and defines and annotates the assay platforms utilized for sequencing. This same template also appears on the web with other names like 'Sequencing Reagent'." assertion.
• ImmPort-Array-Reagents comment "A template that defines and annotates microarrays assay platforms, capturing detailed information about the reagents used in Gene Expression and Genotyping experiments. This same template also appears on the web with other names like 'Array Reagent'." assertion.
• ImmPort-KIR-Reagents comment "A template that defines and annotates assay platforms for KIR typing and captures detailed information about the reagents used, which are linked to KIR experiment sample records. This same template also appears on the web with other names like 'KIR Typing System Reagents'." assertion.
• ImmPort-HLA-Reagents comment "A template that captures detailed information about the reagents used in a HLA typing experiment. This same template also appears on the web with other names like 'HLA Typing System Reagents'." assertion.
• ImmPort-HAI-Reagents comment "A template that captures detailed information about the reagents used in a HAI assays. These include the cell type used. The viral stain and concentration would be defined in the treatments.txt template. This same template also appears on the web with other names like 'HAI Reagent'." assertion.
• ImmPort-PCR-Reagents comment "A template that captures detailed information about the reagents used in a PCR experiment. This same template also appears on the web with other names like 'PCR Reagent'." assertion.
• ImmPort-Standard-Curves comment "A template that structures and annotates standard curves for interpretation within ImmPort, linking control sample concentrations and MFI to analyte concentrations in experiment samples. Standard curves must always be new and unique, while the associated experiment may be new or pre-defined. This template facilitates searching and display of results." assertion.
• ImmPort-Animal-Subjects comment "A template that defines and annotates key study subject elements, including demographics and subject-arm links within a study. This same template also appears on the web with other names like 'Subject Animals' and 'Subject Animal'." assertion.
• ImmPort-Human-Subjects comment "A template that records detailed information about human subjects from whom samples are collected for analysis. It defines and annotates key elements, including demographics and subject-arm links within a study. This same template also appears on the web with other names like 'Subject Humans' and 'Subject Human'." assertion.
• ImmPort-MBAA-Reagents comment "A template that captures samples, reagents, treatments, and results from MBAA experiments. It defines and annotates assay platforms, including a row for each analyte assayed by the MBAA array." assertion.
• ImmPort-Assays-Treatment comment "A template that documents in vitro modifications applied to samples, including the addition of molecules, temperature adjustments, and treatment durations. It supports three types of treatments: amount of agent, duration, and temperature. Treatments are required for experiment samples and optional for biological samples." assertion.
• ImmPort-RNA-Sequencing-Experiment comment "A template that captures samples, reagents, and results from RNA sequencing experiments. Links samples, experiments, and assay results, supporting the description of new experiments and biological samples or the integration of assay results with existing ImmPort content. Requires experiment sample IDs to be unique and not previously stored in ImmPort. This same template also appears on the web with other names like 'RNA Sequencing Transcripts Results Experiment Sample(s)'." assertion.
• ImmPort-Reagents-Set comment "An optional template designed to document groups of reagents used collectively in assays. It enables researchers to define and organize reagents as sets, streamlining reference and documentation processes for assay workflows. This same template also appears on the web with other names like 'Reagent Sets' and 'Reagent Set'." assertion.
• ImmPort-HLA-Experiment comment "A template that captures information on samples, reagents, and results from HLA typing experiments, linking samples, experiments, and assay results by defining and annotating the assay data for each sample. Supports the description of new experiments and biological samples or the integration of new assay results with existing ImmPort content. Requires experiment sample IDs to be unique and not already stored in ImmPort. This same template also appears on the web with other names like 'HLA Experiment' and 'HLA Experiment Sample(s)'." assertion.
• ImmPort-Reagents comment "A template that captures detailed information about reagents used in experiments, such as Image Histology and Metabolomics Mass Spectrometry. It includes multiple tabs in the reagents.xlsx file to accommodate platform-specific details, addressing the varying reagent requirements across platforms. It is used to define and annotate reagents not covered by other reagent templates. This same template also appears on the web with other names like 'Other Reagents'." assertion.
• KnowledgeGraph comment "A knowledge graph is a knowledge base that uses a graph-structured data model or topology to represent and operate on data. Knowledge graphs are often used to store interlinked descriptions of entities – objects, events, situations or abstract concepts – while also encoding the free-form semantics or relationships underlying these entities." assertion.
• SINTEF comment "SINTEF is one of Europe's largest research institutes, with multidisciplinary expertise within technology, natural sciences and social sciences. SINTEF is an independent foundation which, since 1950, has created innovation through development and research assignments for business and the public sector at home and abroad. SINTEF offers world-leading expertise in the field of materials technology. Our research covers the entire value chain, from ores and raw materials, state-of-the-art and environmentally-friendly production processes, to casting and moulding, assembly, and other advanced production processes." assertion.
• DLite comment "A lightweight data-centric framework for semantic interoperability. DLite is a C implementation of the SINTEF Open Framework and Tools (SOFT), which is a set of concepts and tools for using data models (aka Metadata) to efficiently describe and work with scientific data." assertion.
• UoB_CERJ comment "The University of Birmingham is an ambitious global top 100 university. Since our foundation in 1900 we have established a reputation for high quality fundamental research, research that addresses the challenges of our time and innovative, research-integrated teaching. The Centre for Environmental Research and Justice unites experts from many disciplines to address the escalating global issue of environmental pollution. CERJ's innovative work in regulatory and governance spaces combined with state-of-the-art scientific and data managemnet approaches is advancing the assessment of chemical pollution risks, remediation efforts, and supporting the right to a healthy environment." assertion.
• BCL comment "[nl]: De Nederlandse basisclassificatie (NBC) is een van oorsprong Nederlands bibliotheek classificatie-schema speciaal ontwikkeld voor wetenschappelijke bibliotheken. Deze classificatie is eind jaren tachtig van de twintigste eeuw ontwikkeld onder leiding van de Koninklijke Bibliotheek (Nederland), in gebruik sinds 1990 en wordt sindsdien bijgewerkt. https://nl.wikipedia.org/wiki/Nederlandse_Basisclassificatie; [en]: The Dutch Basic Classification (NBC) is an originally Dutch library classification scheme specially developed for academic libraries. This classification was developed in the late 1980s under the leadership of the Koninklijke Bibliotheek (Netherlands), in use since 1990 and has been updated since then. https://nl.wikipedia.org/wiki/Nederlandse_Basisklasse" assertion.
• NTA comment "registry for person names (not: works nor organisations) from the Dutch National Thesaurus for Author names (which also contains non-authors)" assertion.
• FDPspec comment "The specification defines the architecture, metadata structure and schema, API and validation rules for a FAIR Data Point." assertion.
• Auth_fluxnet comment "The service provides authorisation and authentication to FLUXNET users to access the FLUXNET database and download FLUXNET datasets" assertion.
• Auth_fluxnet comment "The service provides authorisation and authentication to FLUXNET users to access the FLUXNET database and download FLUXNET datasets" assertion.
• Auth_fluxnet comment "The service provides authorisation and authentication to FLUXNET users to access the FLUXNET database and download FLUXNET datasets" assertion.
• FAIRsharing.40d9e9 comment "AccessClinicalData@NIAID is a NIAID cloud-based, controlled access, secure data platform that enables sharing of and access to reports and data sets from NIAID COVID-19 and other sponsored clinical trials for the basic and clinical research community." assertion.
• FAIRsharing.z4xpxx comment "AgroPortal is an ontology repository for agronomy as well as food, plant, agriculture and biodiversity sciences. It provides ontology hosting, search, versioning, visualization, comment, and recommendation; enables semantic annotation; stores and exploits ontology alignments; and enables interoperation with the semantic web. To align with the needs of the agronomy community, AgroPortal uses SKOS vocabularies and trait dictionaries) and supported features (offering detailed metadata and advanced annotation capabilities)." assertion.
• Snowterm comment "SnowTerm is an example of a structured reference multilingual scientific and technical vocabulary, covering the terminology of a specific knowledge domain in the polar and the mountain environment. The thematic areas, covered at present, deal with snow and ice physics, snow and ice morphology, snow and ice radiometry, remote sensing and GIS applied to cryosphere environment, sea ice, avalanches, glaciers." assertion.
• GL-HFR comment "The global High Frequency Radar (HFR) community is a collaborative network of academic, governmental, and private organizations dedicated to monitoring and understanding ocean surface currents on a global scale. This community leverages HFR technology, which uses radio waves to measure surface currents over large areas with high spatial and temporal resolution. These measurements are crucial for various applications, including ocean forecasting, environmental monitoring, and maritime safety. The community was established in 2012 as part of the Group on Earth Observations (GEO) to promote HFR technology and increase data sharing among operators and users. Key activities of the global HFR community include increasing the number of coastal radars worldwide, ensuring that HFR data is available in a standardized format, and developing easy-to-use products for end-users. The community also focuses on integrating HFR data into ocean and ecosystem models to enhance the accuracy of predictions and support sustainable management of marine resources. By fostering international collaboration and sharing best practices, the global HFR network aims to create a comprehensive and cohesive system for monitoring coastal and oceanic environments. In 2017 the Global HFR Network was recognized by the Joint Technical WMO-IOC Commission for Oceanography and Marine Meteorology (JCOMM) as an observing network of the Global Ocean Observing System (GOOS)." assertion.
• EU-HFR comment "The European High Frequency Radar (HFR) community, coordinated by the EuroGOOS HF Radar Task Team, plays a crucial role in monitoring and understanding coastal ocean dynamics. High-frequency radar technology is used to map ocean surface currents and wave fields over wide areas with high spatial and temporal resolution. This technology is cost-effective and requires minimal manpower and technical costs, making it accessible for various applications such as meteorology, search and rescue operations, environmental assessments, and renewable energy production. The EuroGOOS HF Radar Task Team focuses on several key activities to enhance the coordinated use and development of HFR technology in Europe. These activities include defining data standards and quality assurance protocols, promoting research and technological innovation, and fostering collaboration between technology providers and users. The team also acts as a European operational node, providing services for sharing data and best practices, and developing joint outreach initiatives. Through these efforts, the community aims to integrate HFR technology into a broader European Ocean Observing System (EOOS), contributing to improved environmental management and scientific research." assertion.
• FAIRsharing.d3pqw7 comment "The QUDT, or 'Quantity, Unit, Dimension and Type' collection of ontologies define the base classes properties, and restrictions used for modeling physical quantities, units of measure, and their dimensions in various measurement systems. QUDT provides a unified model of measurable quantities, units for measuring different kinds of quantities, the numerical values of quantities in different units of measure and the data structures and data types used to store and manipulate these objects in software. This OWL schema is a foundation for a basic treatment of units. Originally developed by TopQuadrant for the NASA Exploration Initiatives Ontology Models (NExIOM) project, they now form the basis of the NASA QUDT Handbook. QUDT aims to improve interoperability of data and the specification of information structures through industry standards for Units of Measure, Quantity Kinds, Dimensions and Data Types." assertion.
• FAIRsharing.d3pqw7 comment "The QUDT, or 'Quantity, Unit, Dimension and Type' collection of ontologies define the base classes properties, and restrictions used for modeling physical quantities, units of measure, and their dimensions in various measurement systems. QUDT provides a unified model of measurable quantities, units for measuring different kinds of quantities, the numerical values of quantities in different units of measure and the data structures and data types used to store and manipulate these objects in software. This OWL schema is a foundation for a basic treatment of units. Originally developed by TopQuadrant for the NASA Exploration Initiatives Ontology Models (NExIOM) project, they now form the basis of the NASA QUDT Handbook. QUDT aims to improve interoperability of data and the specification of information structures through industry standards for Units of Measure, Quantity Kinds, Dimensions and Data Types." assertion.
• FAIRsharing.d3pqw7 comment "The QUDT, or 'Quantity, Unit, Dimension and Type' collection of ontologies define the base classes properties, and restrictions used for modeling physical quantities, units of measure, and their dimensions in various measurement systems. QUDT provides a unified model of measurable quantities, units for measuring different kinds of quantities, the numerical values of quantities in different units of measure and the data structures and data types used to store and manipulate these objects in software. This OWL schema is a foundation for a basic treatment of units. Originally developed by TopQuadrant for the NASA Exploration Initiatives Ontology Models (NExIOM) project, they now form the basis of the NASA QUDT Handbook. QUDT aims to improve interoperability of data and the specification of information structures through industry standards for Units of Measure, Quantity Kinds, Dimensions and Data Types." assertion.
• FAIRsharing.d3pqw7 comment "The QUDT, or 'Quantity, Unit, Dimension and Type' collection of ontologies define the base classes properties, and restrictions used for modeling physical quantities, units of measure, and their dimensions in various measurement systems. QUDT provides a unified model of measurable quantities, units for measuring different kinds of quantities, the numerical values of quantities in different units of measure and the data structures and data types used to store and manipulate these objects in software. This OWL schema is a foundation for a basic treatment of units. Originally developed by TopQuadrant for the NASA Exploration Initiatives Ontology Models (NExIOM) project, they now form the basis of the NASA QUDT Handbook. QUDT aims to improve interoperability of data and the specification of information structures through industry standards for Units of Measure, Quantity Kinds, Dimensions and Data Types." assertion.
• FAIRsharing.d3pqw7 comment "The QUDT, or 'Quantity, Unit, Dimension and Type' collection of ontologies define the base classes properties, and restrictions used for modeling physical quantities, units of measure, and their dimensions in various measurement systems. QUDT provides a unified model of measurable quantities, units for measuring different kinds of quantities, the numerical values of quantities in different units of measure and the data structures and data types used to store and manipulate these objects in software. This OWL schema is a foundation for a basic treatment of units. Originally developed by TopQuadrant for the NASA Exploration Initiatives Ontology Models (NExIOM) project, they now form the basis of the NASA QUDT Handbook. QUDT aims to improve interoperability of data and the specification of information structures through industry standards for Units of Measure, Quantity Kinds, Dimensions and Data Types." assertion.

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