Streamlined capture and curation of unpublished data

简化未发布数据的捕获和管理

基本信息

批准号：
9980493
负责人：
TIM SCHEDL
金额：
$ 55.84万
依托单位：
CALIFORNIA INSTITUTE OF TECHNOLOGY
依托单位国家：
美国
项目类别：
财政年份：
2017
资助国家：
美国
起止时间：
2017-08-01 至 2021-07-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/9980493
关键词：
Archives Biological Biology Biomedical Research Common Data Element Communities Consumption Controlled Vocabulary Data Data Display Data Reporting Data Set Data Storage and Retrieval Databases Deposition Dictyostelium discoideum Ensure Fission Yeast FlyBase Funding Funding Agency Health Incentives Information Resources Ingestion Intelligence Internet Journals Knowledge Life Cycle Stages Literature Manuals Metadata Methods Modeling Ontology Output Peer Review Positioning Attribute Process Production Public Domains Publications Publishing Rat Genome Database Reagent Reproducibility Research Research Personnel Resources Saccharomyces Scientist Standardization Time United States National Institutes of Health Work WormBase XenBase Xenopus laevis Zebrafish cost data ecosystem data exchange data standards data submission data warehouse design digital empowered experimental study genome database genome resource improved indexing interoperability member model organisms databases mouse genome novel preservation pressure repository tool web interface

项目摘要

Project Summary/Abstract The Streamlined capture and curation of unpublished data project will establish a new data capture and dissemination paradigm that automatically and simultaneously captures and ingests biomedical data into authoritative repositories and publishes them in an online, open access journal `Micropublication: biology'. This new platform will introduce a curation paradigm shift, allowing authors to directly submit the output of their research into pre-designed intelligent web forms. Upon submission, these forms will seamlessly integrate, atomize, and submit metadata into authoritative data repositories enhancing the efficiency and accuracy of curation. Simultaneously, the process will automatically generate a `publication-like' PDF file that will be publishable and citable according to findable, accessible, interoperable and reproducible (FAIR) data principles. We call these single result experiments, streamlined with no narrative “micropublications”, ideal for among other things, results that often go unpublished. Authors will preserve provenance and establish credit for their research and the automated flow of data they submit will be made publicly accessible in established and authoritative data repositories such as the Model Organism Database (MOD) members of the Allied Genome Resources (AGR): FlyBase, Mouse Genome Database (MGI), Rat Genome Database (RGD), Saccharomyces Genome Database (SGD), WormBase, Zebrafish Model Organism Database (ZFIN), for further re-use. Through the aforementioned repositories, all submitted metadata will automatically be integrated with existing datasets that have been manually extracted from the literature for almost 2 decades. These data will be peer reviewed ensuring they are of high quality and that they meet community standards. Micropublications will be citable, discoverable, and will comply with the Minimum Information Standards for scientific data reporting. In addition, researchers will be able to share both positive and negative data with the scientific community, fulfilling funding agencies' requirements to share all data coming from publicly funded research. After establishing this data retrieval/publication pipeline with WormBase first, and AGR member databases, we will work to expand to non-member, but otherwise critical biomedical model organism databases, such as Xenbase (Xenopus laevis and tropicalis Database), DictyBase (Dictyostelium discoideum database), PomBase (Schizosaccharomyces pombe Database), among others.

项目概要/摘要未发布数据项目的简化捕获和管理将建立一个新的数据自动同时捕获和摄取的捕获和传播范例将生物医学数据存入权威存储库，并以在线、开放获取的方式发布期刊“微型出版物：生物学”这个新平台将引入策展范式转变，允许作者将他们的研究成果直接提交到预先设计的智能网络中提交后，这些表单将无缝集成、原子化和提交元数据。进入权威数据存储库，提高管理的效率和准确性。同时，该过程将自动生成一个“类似出版物”的 PDF 文件，该文件将根据可查找、可访问、可互操作和可复制 (FAIR) 可发布和可引用我们将这些称为单一结果实验，精简且无叙述。 “微型出版物”，非常适合作者经常未发表的结果。保留其研究的出处并建立信誉以及他们的数据自动流提交将在已建立的权威数据存储库中公开访问，例如作为联合基因组资源 (AGR) 的模式生物数据库 (MOD) 成员： FlyBase、小鼠基因组数据库 (MGI)、大鼠基因组数据库 (RGD)、酵母菌基因组数据库 (SGD)、WormBase、斑马鱼模式生物数据库 (ZFIN)，供进一步通过上述存储库，所有提交的元数据将自动被重新使用。与从文献中手动提取的现有数据集集成这些数据将经过同行评审，以确保它们是高质量的，并且它们符合社区标准。微型出版物将是可引用的、可发现的，并且将遵守。此外，研究人员还遵守科学数据报告的最低信息标准。将能够与科学界分享正面和负面的数据，实现资助机构要求共享来自公共资助研究的所有数据。首先与 WormBase 和 AGR 成员建立此数据检索/发布管道数据库，我们将努力扩展到非会员但在其他方面至关重要的生物医学模型生物数据库，例如Xenbase（非洲爪蟾和热带数据库）、DictyBase （盘基网柄菌数据库）、PomBase（粟酒裂殖酵母数据库）、除其他外。