Cloud implementation of Xenbase the Xenopus model organism knowledgebase

Xenbase Xenopus模型生物知识库的云实现

基本信息

批准号：
10824813
负责人：
PETER D VIZE
金额：
$ 23.83万
依托单位：
CINCINNATI CHILDRENS HOSP MED CTR
依托单位国家：
美国
项目类别：
财政年份：
2010
资助国家：
美国
起止时间：
2010-06-01 至 2026-04-30
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10824813
关键词：
Acceleration Administrative Supplement Animal Model Award Biological Biomedical Research Collaborations Communities Consumption Cost Savings Data Data Set Ensure Environment FAIR principles Genes Genomics Goals Growth Health Human Individual Infrastructure Knowledge Link Maintenance Mission Ontology Outcome Parents Performance Play Privatization Publications Research Research Personnel Resources Role Running Security Series Services Speed System Testing Time Translating Translations Universities Update Visualization software XenBase Xenopus bioinformatics tool biomedical resource cost data integration data management data tools design empowerment end of life experimental study flexibility genome resource human disease human model improved interoperability knowledgebase large datasets large scale data migration model organism ontology development parent grant relational database repository system architecture tool user-friendly virtual machine web-accessible

项目摘要

PROJECT SUMMARY Xenbase.org, the Xenopus model organism knowledgebase, is a web accessible resource that integrates the vast and diverse genomic and biological data from Xenopus research. The parent award to this supplement application is 2P41HD064556, 5/13/2021-04/30/2026 (PIs AM Zorn and PD Vize). Our mission is to accelerate the translation of Xenopus research into knowledge that will improve human health. We aim to empower Xenopus research and enhance the impact of Xenopus data in the broader biomedical community. Animal models such as Xenopus are essential for biomedical research and have led to a wealth of discoveries. In this post genomic era with thousands of scientific publications annually and the exponential growth of “omic” datasets, resources such as Xenbase are essential to translate this vast body of data into meaningful biological syntheses. Xenbase is the only central repository for the enormous amount of data generated from research using Xenopus. Our relational database and user-friendly interface allow investigators to quickly interrogate and link different data types in ways that would otherwise be difficult, time consuming, or impossible. Xenbase implements the FAIR data management principles that aim to make data findable, accessible, interoperable and reusable. Xenbase enhances the value of Xenopus data through high quality curation, ontology development, data integration, bioinformatics tools optimized for Xenopus experiments, and by linking Xenopus data to humans and other model organisms. Xenbase plays an indispensable role in making Xenopus data accessible to the broader biomedical community by continually providing annotated data updates to many organizations such as NCBI, UniProt, Ensembl the Alliance of Genome Resources (AGR) and other model organism knowledgebases (MOKs). Xenbase has over 1,800 registered users with ~1 million pageviews a year and ~50 unique visitors per weekday. The goals of the parent grant are to: Aim1 Maintain Xenbase, Curate and Disseminate Xenopus research data Aim 2 Enhance support for Xenopus models of human diseases Aim 3 Enhance Integrated Omics support The goal of this administrative supplement is to migrate Xenbase from a suite of physical virtual machines to a public AWS cloud. We will then perform a series of reiterative tests and improvements to enhance system reliability, performance, security and enhance large-scale data tools.

项目摘要 Xenbase.org，Xenopus模型有机体知识库，是一个可访问的资源，可以集成 Xenopus研究的大量基因组和生物学数据。应用是2P41HD064556、5/13/2021-04/30/2026（PIS AM ZORN和PD VIZE）。将Xenopus的研究翻译成知识，我们旨在授权人类健康。 Xenopus研究并增强了Xenopus数据在更广泛的生物医学界的影响。诸如Xenopus之类的模型对于生物医学研究至关重要，并导致了很多发现后基因组时代，每年有成千上万的科学出版物以及“ Omic”的指数增长数据集，XENBase之类的资源对于将大量数据转化为有意义的生物学至关重要合成。使用Xenopus。链接数据类型，否则将是difficalt，耗时或不可能的实现旨在使数据可找到，可访问，可互操作的公平数据管理原则可重复使用。开发，数据集成，为Xenopus实验优化的生物信息学工具以及通过链接对人类和其他模型生物的Xenopus数据在制作中起着必不可少的作用通过不断提供带注释的数据，更广泛的生物医学界可以访问Xenopus数据对NCBI，Uniprot，Ensembl基因组资源联盟（AGR）等许多组织的更新和其他模型有机体（MOKS）。 pageview ayear和〜50个唯一访问者，父母的目标是： AIM1维护Xenbase，策划和传播异武研究数据 AIM 2增强对人类疾病武士模型的支持 AIM 3增强集成的OMICS支持行政补充的目的是将Xenbase从一套物理机器迁移到公共AWS云。我们将执行一系列重复测试和改进可靠性，性能，安全性和增强大规模数据工具。