The interactive presentation of 3D information obtained from reconstructed datasets and 3D placement of single histological sections with the 3D portable document format
The interactive presentation of 3D information obtained from reconstructed datasets and 3D placement of single histological sections with the 3D portable document format
复制标题
DOI：
10.1242/dev.051086
复制
发表时间：
2011-01-01
期刊：
影响因子：
4.6
通讯作者：
Ruijter, Jan M.
中科院分区：
文献类型：
--
作者：
de Boer, Bouke A.;Soufan, Alexandre T.;Ruijter, Jan M.
解剖学和胚胎学研究结果的解释在很大程度上依赖于在三维(3D)背景下对复杂的形态发生过程和基因表达模式的适当可视化。然而，重建完整的3D数据集是耗时的，而且研究人员通常只研究少数几个部分。为了帮助理解产生的2D数据，我们开发了一个程序(TRADS)，将这种任意的组织切片放入发育中心脏的高分辨率3D模型中。该程序正确、稳健和精确地放置节段，就像五位形态学专家实现的最好的拟合一样。平面出版物的2D媒介严重阻碍了3D数据的传播。通过研究3D对象获得的许多见解很难使用2D图像传达，因此丢失或无法独立验证。可以将3D对象嵌入到pdf文档中，pdf文档是一种广泛用于分发科学论文的格式。使用免费软件Adobe Reader与这些3D对象交互相当简单，但创建此类对象则不然。我们已经开发了一种协议，该协议一步一步地描述如何将3D对象嵌入到PDF文档中。在pdf文件中使用Traces和包括3D对象都可以帮助解释2D和3D数据，从而优化关于发育生物学中形态问题的交流。
Interpretation of the results of anatomical and embryological studies relies heavily on proper visualization of complex morphogenetic processes and patterns of gene expression in a three-dimensional (3D) context. However, reconstruction of complete 3D datasets is time consuming and often researchers study only a few sections. To help in understanding the resulting 2D data we developed a program (TRACTS) that places such arbitrary histological sections into a high-resolution 3D model of the developing heart. The program places sections correctly, robustly and as precisely as the best of the fits achieved by five morphology experts. Dissemination of 3D data is severely hampered by the 2D medium of print publication. Many insights gained from studying the 3D object are very hard to convey using 2D images and are consequently lost or cannot be verified independently. It is possible to embed 3D objects into a pdf document, which is a format widely used for the distribution of scientific papers. Using the freeware program Adobe Reader to interact with these 3D objects is reasonably straightforward; creating such objects is not. We have developed a protocol that describes, step by step, how 3D objects can be embedded into a pdf document. Both the use of TRACTS and the inclusion of 3D objects in pdf documents can help in the interpretation of 2D and 3D data, and will thus optimize communication on morphological issues in developmental biology.