A unified platform to manage, share, and archive morphological and functional data in insect neuroscience.
A unified platform to manage, share, and archive morphological and functional data in insect neuroscience.
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DOI：
10.7554/elife.65376
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发表时间：
2021-08-24
期刊：
影响因子：
7.7
通讯作者：
Tedore K
中科院分区：
文献类型：
--
作者：
Heinze S;El Jundi B;Berg BG;Homberg U;Menzel R;Pfeiffer K;Hensgen R;Zittrell F;Dacke M;Warrant E;Pfuhl G;Rybak J;Tedore K
昆虫神经科学产生了大量高度多样化的数据，其中只有一小部分是可找到的，可访问的和可重复使用的。为了促进开放数据文化，我们开发了昆虫脑数据库（IBdb），这是一个免费的昆虫神经解剖学和功能数据在线平台。IBdb通过实现有效的跨物种比较，将神经结构与功能联系起来，以及作为昆虫神经科学的通用信息中心，促进生物学洞察力。IBdb不仅允许用户有效地定位和可视化数据，还可以通过应用程序编程接口使数据广泛可用，以便轻松自动重用。数据库独特的私有模式将IBdb功能扩展到公共数据存储之外，还提供了管理，可视化和共享未发布数据的方法。这种双重功能为数据管理工作流程中的早期数据贡献创造了激励，并消除了通常与公开存放研究数据相关的额外工作。昆虫神经科学，像自然科学中的任何领域一样，产生了大量的数据。目前，只有一小部分是公开的，可重用的就更少了。这是因为昆虫神经科学数据有多种格式，来自许多物种。一些实验关注昆虫大脑的外观（形态学），而另一些实验则关注昆虫大脑的工作方式（功能）。一些数据以高速视频的形式出现，而另一些数据则包含来自单个神经元的电压轨迹。分享并不像将原始文件上传到互联网那么简单。为了清楚地了解昆虫大脑的工作原理，研究人员需要一种交叉引用和连接不同实验的方法。但是，就目前而言，没有专门的地方让昆虫神经科学家分享和探索如此多样化的工作。社区需要一个开放的数据库，可以链接许多物种的不同类型的数据，并可以随着更多数据的可用而发展。最重要的是，这个存储库需要易于研究人员使用。为了满足这些规格，Heinze等人开发了昆虫脑数据库。该数据库将数据分为三类：物种、大脑结构和神经元类型。在这些类别中，每个条目都有自己的个人资料页面。这些页面将不同的实验放在一个标题下，允许研究人员联合收割机组合和比较不同类型的数据。随着研究人员增加更多的实验，个人资料页面将增长和发展。为了使数据易于导航，Heinze等人开发了一种视觉搜索工具。2D和3D图像的组合允许用户通过解剖位置探索数据，而无需专业知识。研究人员还可以选择以私人模式上传他们的工作，允许他们安全地共享未发布的数据。昆虫大脑数据库将数据汇集在一起，不仅研究人员可以访问，而且学生和非科学家也可以访问。它将帮助研究人员找到相关的工作，重用现有的数据，并建立一个开放的数据文化。这有可能推动新的发现，结合整个昆虫神经科学领域的研究。
Insect neuroscience generates vast amounts of highly diverse data, of which only a small fraction are findable, accessible and reusable. To promote an open data culture, we have therefore developed the InsectBrainDatabase (IBdb), a free online platform for insect neuroanatomical and functional data. The IBdb facilitates biological insight by enabling effective cross-species comparisons, by linking neural structure with function, and by serving as general information hub for insect neuroscience. The IBdb allows users to not only effectively locate and visualize data, but to make them widely available for easy, automated reuse via an application programming interface. A unique private mode of the database expands the IBdb functionality beyond public data deposition, additionally providing the means for managing, visualizing, and sharing of unpublished data. This dual function creates an incentive for data contribution early in data management workflows and eliminates the additional effort normally associated with publicly depositing research data. Insect neuroscience, like any field in the natural sciences, generates vast amounts of data. Currently, only a fraction are publicly available, and even less are reusable. This is because insect neuroscience data come in many formats and from many species. Some experiments focus on what insect brains look like (morphology), while others focus on how insect brains work (function). Some data come in the form of high-speed video, while other data contain voltage traces from individual neurons. Sharing is not as simple as uploading the raw files to the internet. To get a clear picture of how insect brains work, researchers need a way to cross-reference and connect different experiments. But, as it stands, there is no dedicated place for insect neuroscientists to share and explore such a diverse body of work. The community needs an open data repository that can link different types of data across many species, and can evolve as more data become available. Above all, this repository needs to be easy for researchers to use. To meet these specifications, Heinze et al. developed the Insect Brain Database. The database organizes data into three categories: species, brain structures, and neuron types. Within these categories, each entry has its own profile page. These pages bring different experiments together under one heading, allowing researchers to combine and compare data of different types. As researchers add more experiments, the profile pages will grow and evolve. To make the data easy to navigate, Heinze et al. developed a visual search tool. A combination of 2D and 3D images allow users to explore the data by anatomical location, without the need for expert knowledge. Researchers also have the option to upload their work in private mode, allowing them to securely share unpublished data. The Insect Brain Database brings data together in a way that is accessible not only to researchers, but also to students, and non-scientists. It will help researchers to find related work, to reuse existing data, and to build an open data culture. This has the potential to drive new discoveries combining research across the whole of the insect neuroscience field.
影响因子：
3
作者：
Ito K
通讯作者：
Ito K