Integrative Structural and Computational Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037 USA.
J Struct Biol. 2018 Jul;203(1):37-45. doi: 10.1016/j.jsb.2018.02.006. Epub 2018 Feb 24.
Extraction of particles from cryo-electron microscopy (cryo-EM) micrographs is a crucial step in processing single-particle datasets. Although algorithms have been developed for automatic particle picking, these algorithms generally rely on two-dimensional templates for particle identification, which may exhibit biases that can propagate artifacts through the reconstruction pipeline. Manual picking is viewed as a gold-standard solution for particle selection, but it is too time-consuming to perform on data sets of thousands of images. In recent years, crowdsourcing has proven effective at leveraging the open web to manually curate datasets. In particular, citizen science projects such as Galaxy Zoo have shown the power of appealing to users' scientific interests to process enormous amounts of data. To this end, we explored the possible applications of crowdsourcing in cryo-EM particle picking, presenting a variety of novel experiments including the production of a fully annotated particle set from untrained citizen scientists. We show the possibilities and limitations of crowdsourcing particle selection tasks, and explore further options for crowdsourcing cryo-EM data processing.
从冷冻电子显微镜(cryo-EM)显微照片中提取颗粒是处理单颗粒数据集的关键步骤。尽管已经开发出用于自动颗粒挑选的算法,但这些算法通常依赖于用于颗粒识别的二维模板,这可能会表现出偏差,从而通过重建管道传播伪影。手动挑选被视为颗粒选择的金标准解决方案,但对于数千张图像的数据集来说,手动挑选太耗时了。近年来,众包已被证明可以有效地利用开放网络来手动管理数据集。特别是,像 Galaxy Zoo 这样的公民科学项目已经展示了吸引用户科学兴趣来处理大量数据的力量。为此,我们探讨了众包在冷冻电子显微镜颗粒挑选中的可能应用,提出了各种新颖的实验,包括从未接受过培训的公民科学家那里制作完全注释的颗粒集。我们展示了众包颗粒选择任务的可能性和局限性,并探讨了进一步进行众包冷冻电子显微镜数据处理的选项。