Information Theory as an Experimental Tool for Integrating Disparate Biophysical Signaling Modules.
Information Theory as an Experimental Tool for Integrating Disparate Biophysical Signaling Modules.
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DOI：
10.3390/ijms23179580
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发表时间：
2022-08-24
影响因子：
5.6
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中科院分区：
文献类型：
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在细胞生物学和发育生物学领域，人们越来越认识到细胞在时间和空间上共同处理信息。虽然存在许多强大的分子工具来观察生物物理动力学，但生物学家必须找到在系统水平上定量理解这些现象的方法。在这里，我们提出了一个指南，用于将成熟的信息理论指标应用于生物数据集，并使用细胞，发育和再生生物学的例子解释这些指标。我们介绍了一种新的计算工具，其预期的目的，钙成像，（CAIM）的简单，严格的应用这些指标的时间序列数据集命名。最后，我们使用CAIM研究非洲爪蟾胚胎动物帽干细胞之间的钙和细胞骨架肌动蛋白的信息流模式。我们在这里提出的工具，应该使生物学家应用信息理论，开发一个系统级的信息处理在不同的实验系统的理解。
There is a growing appreciation in the fields of cell biology and developmental biology that cells collectively process information in time and space. While many powerful molecular tools exist to observe biophysical dynamics, biologists must find ways to quantitatively understand these phenomena at the systems level. Here, we present a guide for the application of well-established information theory metrics to biological datasets and explain these metrics using examples from cell, developmental and regenerative biology. We introduce a novel computational tool named after its intended purpose, calcium imaging, (CAIM) for simple, rigorous application of these metrics to time series datasets. Finally, we use CAIM to study calcium and cytoskeletal actin information flow patterns between Xenopus laevis embryonic animal cap stem cells. The tools that we present here should enable biologists to apply information theory to develop a systems-level understanding of information processing across a diverse array of experimental systems.