论文标题

非平衡自组装的成核动力学中的模式识别

Pattern recognition in the nucleation kinetics of non-equilibrium self-assembly

论文作者

Evans, Constantine Glen, O'Brien, Jackson, Winfree, Erik, Murugan, Arvind

论文摘要

受到生物学最复杂的计算机的启发,大脑,神经网络构成了对计算原理的深刻重新重新重新制定。值得注意的是,在活细胞内部的信息处理分子系统(例如信号转导级联和遗传调节网络)内,在信息处理的分子系统中也出现了类似的高维,高度相关的计算体系结构。在其他物理和化学过程中,即使表面上扮演非信息处理的角色,例如蛋白质合成,代谢或结构自组装等表面上,神经形态集体模式是否会更广泛地发现。在这里,我们检查了多组分结构自组装过程中的成核,表明可以以类似于神经网络计算的方式来区分浓度的高维模式和分类。具体而言,我们设计了一组917个DNA瓷砖,可以以三种替代方式自组装,从而使竞争成核敏感地取决于三个结构中高分化瓷砖共定位的程度。该系统经过训练,以将18个灰度30 x 30像素图像分为三类。在150小时的退火过程中和之后,在实验上,荧光和原子力显微镜监测确定所有训练有素的图像均正确分类,而一组测试的图像变化集探测了结果的鲁棒性。与先前的生化神经网络相比,我们的方法令人惊讶地紧凑,健壮且可扩展。这种成功表明,无处不在的物理现象(例如成核)在缩放为高维多组分系统时可能具有强大的信息处理能力。

Inspired by biology's most sophisticated computer, the brain, neural networks constitute a profound reformulation of computational principles. Remarkably, analogous high-dimensional, highly-interconnected computational architectures also arise within information-processing molecular systems inside living cells, such as signal transduction cascades and genetic regulatory networks. Might neuromorphic collective modes be found more broadly in other physical and chemical processes, even those that ostensibly play non-information-processing roles such as protein synthesis, metabolism, or structural self-assembly? Here we examine nucleation during self-assembly of multicomponent structures, showing that high-dimensional patterns of concentrations can be discriminated and classified in a manner similar to neural network computation. Specifically, we design a set of 917 DNA tiles that can self-assemble in three alternative ways such that competitive nucleation depends sensitively on the extent of co-localization of high-concentration tiles within the three structures. The system was trained in-silico to classify a set of 18 grayscale 30 x 30 pixel images into three categories. Experimentally, fluorescence and atomic force microscopy monitoring during and after a 150-hour anneal established that all trained images were correctly classified, while a test set of image variations probed the robustness of the results. While slow compared to prior biochemical neural networks, our approach is surprisingly compact, robust, and scalable. This success suggests that ubiquitous physical phenomena, such as nucleation, may hold powerful information processing capabilities when scaled up as high-dimensional multicomponent systems.

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