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An informatics research platform to make public gene expression time-course datasets reusable for more scientific discoveries
Database: The Journal of Biological Databases and Curation ( IF 5.8 ) Pub Date : 2020-11-28 , DOI: 10.1093/database/baaa074
Braja Gopal Patra 1 , Babak Soltanalizadeh 2 , Nan Deng 2 , Leqing Wu 2 , Vahed Maroufy 2 , Canglin Wu 3 , W Jim Zheng 4 , Kirk Roberts 4 , Hulin Wu 2, 4 , Ashraf Yaseen 2
Affiliation  

The exponential growth of genomic/genetic data in the era of Big Data demands new solutions for making these data findable, accessible, interoperable and reusable. In this article, we present a web-based platform named Gene Expression Time-Course Research (GETc) Platform that enables the discovery and visualization of time-course gene expression data and analytical results from the NIH/NCBI-sponsored Gene Expression Omnibus (GEO). The analytical results are produced from an analytic pipeline based on the ordinary differential equation model. Furthermore, in order to extract scientific insights from these results and disseminate the scientific findings, close and efficient collaborations between domain-specific experts from biomedical and scientific fields and data scientists is required. Therefore, GETc provides several recommendation functions and tools to facilitate effective collaborations. GETc platform is a very useful tool for researchers from the biomedical genomics community to present and communicate large numbers of analysis results from GEO. It is generalizable and broadly applicable across different biomedical research areas. GETc is a user-friendly and efficient web-based platform freely accessible at http://genestudy.org/

中文翻译:

一个信息学研究平台,使公共基因表达时间过程数据集可重复用于更多科学发现

大数据时代基因组/遗传数据的指数级增长需要新的解决方案来使这些数据可查找、可访问、可互操作和可重复使用。在本文中,我们介绍了一个名为 Gene Expression Time-Course Research (GETc) Platform 的基于网络的平台,该平台能够发现和可视化来自 NIH/NCBI 赞助的 Gene Expression Omnibus (GEO) 的时程基因表达数据和分析结果)。分析结果是从基于常微分方程模型的分析管道产生的。此外,为了从这些结果中提取科学见解并传播科学发现,生物医学和科学领域的特定领域专家与数据科学家之间需要密切有效的合作。所以,GETc 提供了多种推荐功能和工具来促进有效的协作。GETc 平台对于生物医学基因组学界的研究人员来说是一个非常有用的工具,可以展示和交流来自 GEO 的大量分析结果。它在不同的生物医学研究领域具有普遍性和广泛适用性。GETc 是一个用户友好且高效的基于网络的平台,可在 http://genestudy.org/ 上免费访问
更新日期:2020-12-01
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