Visual comprehension and orientation into the COVID-19 CIDO ontology.
Visual comprehension and orientation into the COVID-19 CIDO ontology.
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DOI：
10.1016/j.jbi.2021.103861
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发表时间：
2021-08
影响因子：
4.5
通讯作者：
Keloth VK
中科院分区：
文献类型：
--
作者：
Zheng L;Perl Y;He Y;Ochs C;Geller J;Liu H;Keloth VK
目前对COVID-19的潜在补救措施和疫苗接种的深入研究将极大地受益于标准化的COVID术语本体。冠状病毒传染病本体（CIDO）是几个COVID本体中最大的，并且它还在不断增长，但它仍然是一个中等规模的本体。资深的CIDO用户需要的不仅仅是搜索一个特定的概念，他们需要对CIDO的定位和理解。在之前的研究中，我们设计了一个称为“部分区域分类法”的摘要网络来支持本体的理解。CIDO的部分区域分类法比CIDO的规模小，但仍然太大而难以理解。我们在这里提出了CIDO的“加权聚合分类法”，旨在为我们的部分区域分类法（和CIDO本体）提供不同粒度的紧凑视图。这种紧凑的视图提供了本体论内容的“大图景”。在以前的工作中，在用于部分区域分类法的可视化模式中，节点根据其概念的关系数量按级别排列。将此可视化模式应用于CIDO的加权聚合分类法会导致过长过窄的布局，不支持方向和理解，因为节点的名称几乎不可读。因此，我们在本文中引入了一种创新的加权聚合分类法的可视化，以便更好地定位和理解CIDO（和其他本体）。介绍了一种衡量布局效率的方法，并用它来证明新布局相对于前一种布局的优势。通过这种新的可视化，用户可以“只见树木不见森林”的本体。本文提供了这种可视化在突出显示CIDO内容方面的好处。论证了新布局的通用性。
The current intensive research on potential remedies and vaccinations for COVID-19 would greatly benefit from an ontology of standardized COVID terms. The Coronavirus Infectious Disease Ontology (CIDO) is the largest among several COVID ontologies, and it keeps growing, but it is still a medium sized ontology. Sophisticated CIDO users, who need more than searching for a specific concept, require orientation and comprehension of CIDO. In previous research, we designed a summarization network called “partial-area taxonomy” to support comprehension of ontologies. The partial-area taxonomy for CIDO is of smaller magnitude than CIDO, but is still too large for comprehension. We present here the “weighted aggregate taxonomy” of CIDO, designed to provide compact views at various granularities of our partial-area taxonomy (and the CIDO ontology). Such a compact view provides a “big picture” of the content of an ontology. In previous work, in the visualization patterns used for partial-area taxonomies, the nodes were arranged in levels according to the numbers of relationships of their concepts. Applying this visualization pattern to CIDO's weighted aggregate taxonomy resulted in an overly long and narrow layout that does not support orientation and comprehension since the names of nodes are barely readable. Thus, we introduce in this paper an innovative visualization of the weighted aggregate taxonomy for better orientation and comprehension of CIDO (and other ontologies). A measure for the efficiency of a layout is introduced and is used to demonstrate the advantage of the new layout over the previous one. With this new visualization, the user can “see the forest for the trees” of the ontology. Benefits of this visualization in highlighting insights into CIDO’s content are provided. Generality of the new layout is demonstrated.
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影响因子：
14.9
作者：
Köhler S;Vasilevsky NA;Engelstad M;Foster E;McMurry J;Aymé S;Baynam G;Bello SM;Boerkoel CF;Boycott KM;Brudno M;Buske OJ;Chinnery PF;Cipriani V;Connell LE;Dawkins HJ;DeMare LE;Devereau AD;de Vries BB;Firth HV;Freson K;Greene D;Hamosh A;Helbig I;Hum C;Jähn JA;James R;Krause R;F Laulederkind SJ;Lochmüller H;Lyon GJ;Ogishima S;Olry A;Ouwehand WH;Pontikos N;Rath A;Schaefer F;Scott RH;Segal M;Sergouniotis PI;Sever R;Smith CL;Straub V;Thompson R;Turner C;Turro E;Veltman MW;Vulliamy T;Yu J;von Ziegenweidt J;Zankl A;Züchner S;Zemojtel T;Jacobsen JO;Groza T;Smedley D;Mungall CJ;Haendel M;Robinson PN
通讯作者：
Robinson PN
DOI：
10.1136/jamia.1994.95236135
发表时间：
1994-01-01
影响因子：
6.4
作者：
CIMINO, JJ;CLAYTON, PD;JOHNSON, SB
通讯作者：
JOHNSON, SB
DOI：
10.1136/amiajnl-2014-003151
发表时间：
2015-05-01
影响因子：
6.4
作者：
Ochs, Christopher;Geller, James;Wei, Zhi
通讯作者：
Wei, Zhi
影响因子：
1.9
作者：
Hanna J;Joseph E;Brochhausen M;Hogan WR
通讯作者：
Hogan WR
影响因子：
16.6
作者：
Katifori, Akrivi;Halatsis, Constantin;Giannopoulou, Eugenia
通讯作者：
Giannopoulou, Eugenia