cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25504/fairsharing.ijue3j
title: FAIRsharing record for: Minimum Information about Peptide Array Experiment
title: MIAPepAE

description: This FAIRsharing record describes:  Peptide-array screening is currently a well-established high-throughput technique with a growing numbers of application. Peptide-array technology is used for protein recognition, quantification of peptide expression levels, and detection of protein-protein interactions. The use of protein/pep- tide arrays in medical life science studies is becoming increasingly widespread. Their increased use in diagnostic applications and protein function profiling calls for a standardised set of guide- lines to be followed by future experimenters to enable reproducible, high-quality data and ac- curate findings. We aim to provide preliminary guidelines describing the Minimum Information About a Peptide- Array Experiment (MIAPepAE). We propose a checklist of data and meta-data that should accom- pany a peptide-array experiment, and invite fellow researchers in the field to collaborate in this effort to create a sustainable and coherent set of guidelines for the benefit of the protein/peptide- array research community. Although this article focuses on spotting peptide arrays, MIAPepAE is intended to be a work-in-progress to be adopted for other peptide-array types, such as in situ synthesised peptide arrays.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.rrms81
title: FAIRsharing record for: Terminology of Anatomy of Human Embryology
title: TAHE

description: This FAIRsharing record describes:  "Terminology of Anatomy of Human Embryology" is a standard, specialising in the fields described under "scope and data types", below. Until this entry is claimed, more information on this project can be found at http://bioportal.bioontology.org/ontologies/1536. This text was generated automatically. If you work on the project responsible for "Terminology of Anatomy of Human Embryology" then please consider helping us by claiming this record and updating it appropriately.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.7rfpgs
title: FAIRsharing record for: LINCS Extended Metadata Standard: Small molecules
title: LINCS 2: Small molecules

description: This FAIRsharing record describes:  LINCS Production Phase 2 Extended Metadata Standards were developed by the LINCS consortium with the goal of generating an integrated view across the diverse LINCS data resources. These guidelines are focused on the minimum required information to model LINCS assays and results and have been recommended by LINCS for adoption beyond the LINCS project. Small molecules are used as perturbagens in LINCS experiments. Small-molecule metadata also include substance-specific batch information, such as compound provider, salt form, molecular mass, purity, and aqueous solubility. For Food and Drug Administration–approved drugs, they proposed reporting additional information, such as drug indication and mechanism of action. If available, Protein Data Bank identifiers of corresponding target small-molecule co-crystal structures should also be reported.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.wwi10u
title: FAIRsharing record for: The FAIR Principles
title: FAIR

description: This FAIRsharing record describes:  One of the grand challenges of data-intensive science is to facilitate knowledge discovery by assisting humans and machines in their discovery of, access to, integration and analysis of, task-appropriate scientific data and their associated algorithms and workflows. The term "FAIR" was launched at a Lorentz workshop in 2014, attended by a wide range of academic, corporate, and governmental stakeholders. The resulting draft FAIR Principles were initially made available for public comment via the websites of peer-initiatives such as, for example, Force11. Based on this feedback, the final Principles were published in 2016 (https://www.nature.com/articles/sdata201618).  FAIR is a set of guiding principles to make data Findable, Accessible, Interoperable, and Re-usable. These guidelines provide advice for those wishing to enhance the (re)usability of their data holdings. Distinct from peer initiatives that focus on the human scholar, the FAIR Principles put specific emphasis on enhancing the ability of machines to automatically find and use the data, in addition to supporting its reuse by individuals.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.xhwrnr
title: FAIRsharing record for: Cell Cycle Ontology
title: CCO

description: This FAIRsharing record describes:  CCO contains genes, proteins, interactions (comprising genes or proteins that participate in them), processes from the cell cycle subtree of GO, molecular functions (GO), taxa, and ontological constructs (like an upper level ontology and relationships) to stick everything together.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.zb33h5
title: FAIRsharing record for: TAIR annotation data Format
title: null

description: This FAIRsharing record describes:  At TAIR, we display Gene Ontology and Plant Ontology annotations made by TAIR curators and those made by the community including individual researchers and contributors to the GO Consortium. The GO annotations in TAIR are made using a combination of manual and computational methods.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.w4x6n4
title: FAIRsharing record for: Ontology of Vaccine Adverse Events
title: OVAE

description: This FAIRsharing record describes:  The Ontology of Vaccine Adverse Events (OVAE) is a biomedical ontology in the area of vaccine adverse events. While they are extremely useful in decreasing infection prevalence in human populations, vaccines may also induce some unintended adverse events. As vaccine usage increases, the risk of adverse events proportionally increases. To protect public health, it is necessary to represent, study, and analyze various vaccine adverse events (VAES). Two existing ontologies are closely related to the VAE studies. The Ontology of Adverse Events (OAE) is a community-based biomedical ontology in the area of adverse events. The Vaccine Ontology (VO) represents various vaccines, vaccine components, and vaccinations. Both OAE and VO are OBO Foundry candidate ontologies and are developed by following the OBO Foundry principles.    To better represent various VAEs and support vaccine safety study, we developed the Ontology of Vaccine Adverse Events (OVAE) as an extension of the biomedical ontologies OAE and VO.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.wwy1ns
title: FAIRsharing record for: Physico-chemical methods and properties
title: FIX

description: This FAIRsharing record describes:  FIX consists of two ontologies: methods and properties (but not objects, which are subject of the chemical ontology). The methods are applied to study the properties. While this ontology is available via BioPortal and the OBO Foundry, we cannot find a home page or a publication for the resource, and the resource itself is no longer maintained.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.5yn03x
title: FAIRsharing record for: Dataset processing
title: ONL-DP

description: This FAIRsharing record describes:  This ontology is a module of the OntoNeuroLOG ontology, developed in the context of the NeuroLOG project, a french project supported by ANR (ANR-06-TLOG-024 grant) aiming at integrating distributed heterogeous resources in neuroimaging. If covers the domain of Datasets and the processing of datasets. It includes a detailed taxonomy of datasets in the area of neuroimaging (and especially MR imaging) as well as a taxonomy of medical image processing.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.dp0jvd
title: FAIRsharing record for: Biological Expression Language
title: BEL

description: This FAIRsharing record describes:  BEL is a language for representing scientific findings in the life sciences in a reusable, shareable, and computable form. BEL is designed to represent scientific findings by capturing causal and correlative relationships in context, where context can include information about the biological and experimental system in which the relationships were observed, the supporting publications cited and the process of curation. BEL is intended as a knowledge capture and interchange medium, supporting the operation of systems that integrate knowledge derived from independent efforts. The language is designed to be use-neutral, facilitating the storage and use of structured knowledge for inference by applications through a knowledge assembly process that can create computable biological networks. While BEL does not prescribe any particular assembly process or any particular knowledge format for the output of an assembly process, a suite of software components called the BEL Framework provides everything necessary to create, compile, assemble, and deliver computable knowledge models to BEL-aware applications. The current version of BEL provides the means to describe biological interactions qualitatively but not to quantify the magnitude or rate of these interactions. This limitation is by design because this quantitative information has significant variability and is not consistently reported in the literature. It is our hope that future versions of BEL can accommodate these additional data.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.3fyavr
title: FAIRsharing record for: Bioinformatics Web Service Ontology
title: OBIws

description: This FAIRsharing record describes:  The Bioinformatics Web Services ontology (OBIws) is an ontology that extends the Ontology for Biomedical Investigations (OBI) to build an ontology that supports consistent annotation of bioinformatics Web services. We follow a systematic methodology for enriching OBI with terms to support Web service annotation. This process involves the design of ontology analysis diagrams for Web services and their subsequent analysis to discover terms that need to be added to the ontology. Current OBIws ontology is focusing on sequence analysis web services. With developed patterns of modeling web services, OBIws can be extended easily to support annotations of different kind web services.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.dmhjcg
title: FAIRsharing record for: Quality Control Markup Language
title: QCML

description: This FAIRsharing record describes:  An XML format for quality-related data of mass spectrometry and other high-throughput experiments. Quality control is increasingly recognized as a crucial aspect of mass spectrometry based proteomics. Several recent papers discuss relevant parameters for quality control and present applications to extract these from the instrumental raw data. What has been missing, however, is a standard data exchange format for reporting these performance metrics. We therefore developed the qcML format, an XML-based standard that follows the design principles of the related mzML, mzIdentML, mzQuantML, and TraML standards from the HUPO-PSI (Proteomics Standards Initiative). In addition to the XML format, we also provide tools for the calculation of a wide range of quality metrics as well as a database format and interconversion tools, so that existing LIMS systems can easily add relational storage of the quality control data to their existing schema. We here describe the qcML specification, along with possible use cases and an illustrative example of the subsequent analysis possibilities.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.pvfyj4
title: FAIRsharing record for: LINCS Extended Metadata Standard: Other Reagents
title: LINCS 2: Other Reagents

description: This FAIRsharing record describes:  LINCS Production Phase 2 Extended Metadata Standards were developed by the LINCS consortium with the goal of generating an integrated view across the diverse LINCS data resources. These guidelines are focused on the minimum required information to model LINCS assays and results and have been recommended by LINCS for adoption beyond the LINCS project. This category serves to describe generic reagents that fall outside of any of the previously listed specific categories. An example is lipopolysaccharide, a component of the outer membrane of gram-negative bacteria that triggers an immune response similar to that initiated by a bacterial infection. Information that is relevant to be reported about these reagents includes a standardized name and ID, provider information, purity, and source.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.wcpd6f
title: FAIRsharing record for: Basic Formal Ontology
title: BFO

description: This FAIRsharing record describes:  The Basic Formal Ontology (BFO, also known via its ISO label as 'ISO/IEC 21838-2:2021 Information technology — Top-level ontologies (TLO) — Part 2: Basic Formal Ontology (BFO)') is an ontology that is conformant to the requirements specified for top-level ontologies in ISO/IEC 21838‑1. BFO is a small, upper level ontology that is designed for use in supporting information retrieval, analysis and integration in scientific and other domains. BFO is a genuine upper ontology. Thus it does not contain physical, chemical, biological or other terms which would properly fall within the coverage domains of the special sciences. BFO is used by more than 250 ontology-driven endeavors throughout the world. 
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.qpyp5g
title: FAIRsharing record for: Gating-ML
title: Gating-ML

description: This FAIRsharing record describes:  The Gating-ML specification represents a proposal on how to form unambiguous XML-based gate definitions that may be used independently as well as included as one of the components of ACS. The specification supports rectangular gates in n dimensions (i.e., from one-dimensional range gates up to n-dimensional hyper-rectangular regions), polygon gates in two (and more) dimensions, ellipsoid gates in n dimensions, decision tree structures, and Boolean collections of any of the types of gates. Gates can be uniquely identified and may be ordered into a hierarchical structure to describe a gating strategy. Gates may be applied on parameters as in list mode data files (e.g., FCS files) or on transformed parameters as described by any explicit parameter transformation.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.vd694s
title: FAIRsharing record for: Agricultural Metadata Element Set
title: AgMES

description: This FAIRsharing record describes:  The Agricultural Metadata Element Set (AgMES) provides a solution to semantic data standards such as the description, resource discovery, interoperability and data exchange for different types of information resources. AgMES as a namespace is designed to include agriculture specific extensions for terms and refinements from established standard metadata namespaces like Dublin Core, AGLS etc.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.5x3gnz
title: FAIRsharing record for: Coding Symbols for a Thesaurus of Adverse Reaction Terms
title: COSTART

description: This FAIRsharing record describes:  Coding Symbols for Thesaurus of Adverse Reaction Terms (COSTART). 5th ed. Rockville (MD). COSTART is used for coding, filing, and retrieving post-marketing adverse drug and biologic experience reports. COSTART is organized in body system and pathophysiology hierarchies, as well as a separate fetal/neonatal category of less than 20 terms. COSTART has been superseded by the Medical Dictionary for Regulatory Activities (MedDRA) Terminology.
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.ak8p5g
title: FAIRsharing record for: MicroArray Gene Expression Tabular Format
title: MAGE-TAB

description: This FAIRsharing record describes:  Sharing of microarray data within the research community has been greatly facilitated by the development of the disclosure and communication standards MIAME and MAGE-ML by the FGED Society. However, the complexity of the MAGE-ML format has made its use impractical for laboratories lacking dedicated bioinformatics support. We propose a simple tab-delimited, spreadsheet-based format, MAGE-TAB, which will become a part of the MAGE microarray data standard and can be used for annotating and communicating microarray data in a MIAME compliant fashion. MAGE-TAB will enable laboratories without bioinformatics experience or support to manage, exchange and submit well-annotated microarray data in a standard format using a spreadsheet. The MAGE-TAB format is self-contained, and does not require an understanding of MAGE-ML or XML
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.
DOI: 10.25504/fairsharing.s0k240
title: FAIRsharing record for: Template for Intervention Description and Replication
title: TIDieR

description: This FAIRsharing record describes:  To improve the completeness of reporting, and ultimately the replicability, of interventions, an international group of experts and stakeholders developed the Template for Intervention Description and Replication (TIDieR) checklist and guide. The 12 item TIDieR checklist is an extension of the CONSORT 2010 statement (item 5) and the SPIRIT 2013 statement (item 11). For authors of reports of randomised trials, it is recommended that TIDieR is used in conjunction with the CONSORT checklist: when authors complete item 5 of the CONSORT checklist, they should insert “refer to TIDieR checklist” and provide a separate completed TIDieR checklist. Similarly, for authors submitting protocols of trials, the TIDieR checklist can be referred to when dealing with item 11 of the SPIRIT 2013 checklist (although TIDieR items 10 and 12 are not applicable to protocols as they cannot be completed until the study is complete).
description: The source of this description is the metadata record on FAIRsharing.org, an educational and informative resource that describes and links databases, standards, and data policies. FAIRsharing also creates collections of these resources and recommendations of databases and standards based on 3rd party data policies.