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统一生物网络的基本概念:生物学见解与哲学基础。

Unifying the essential concepts of biological networks: biological insights and philosophical foundations.

机构信息

University Bordeaux Montaigne, Department of Philosophy and EA 4574 'Sciences, Philosophie, Humanités' (SPH) at University of Bordeaux, Allée Geoffroy Saint-Hilaire, Bâtiment B2, 33615 Pessac cedex, France.

Institute of Computational Neuroscience, University Medical Center Hamburg-Eppendorf, Hamburg 20246, Germany.

出版信息

Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190314. doi: 10.1098/rstb.2019.0314. Epub 2020 Feb 24.

Abstract

Over the last decades, network-based approaches have become highly popular in diverse fields of biology, including neuroscience, ecology, molecular biology and genetics. While these approaches continue to grow very rapidly, some of their conceptual and methodological aspects still require a programmatic foundation. This challenge particularly concerns the question of whether a generalized account of explanatory, organizational and descriptive levels of networks can be applied universally across biological sciences. To this end, this highly interdisciplinary theme issue focuses on the definition, motivation and application of key concepts in biological network science, such as explanatory power of distinctively network explanations, network levels and network hierarchies. This article is part of the theme issue 'Unifying the essential concepts of biological networks: biological insights and philosophical foundations'.

摘要

在过去的几十年中,基于网络的方法在神经科学、生态学、分子生物学和遗传学等多个生物学领域变得非常流行。虽然这些方法仍在快速发展,但它们的一些概念和方法方面仍需要一个编程基础。这一挑战尤其涉及到一个问题,即是否可以普遍应用于生物科学的网络的解释、组织和描述水平的通用解释。为此,本期高度跨学科主题特别关注生物网络科学中的关键概念的定义、动机和应用,例如独特的网络解释的解释力、网络层次和网络层次结构。本文是主题为“统一生物网络的基本概念:生物学见解和哲学基础”的一部分。

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本文引用的文献

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Shifting levels of ecological network's analysis reveals different system properties.生态网络分析的层次转变揭示了不同的系统特性。
Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190326. doi: 10.1098/rstb.2019.0326. Epub 2020 Feb 24.
2
Exploring modularity in biological networks.探索生物网络的模块性。
Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190316. doi: 10.1098/rstb.2019.0316. Epub 2020 Feb 24.
3
Evolving complexity: how tinkering shapes cells, software and ecological networks.不断进化的复杂性:偶然事件如何塑造细胞、软件和生态网络。
Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190325. doi: 10.1098/rstb.2019.0325. Epub 2020 Feb 24.
4
'Hierarchy' in the organization of brain networks.大脑网络组织中的“层级”。
Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190319. doi: 10.1098/rstb.2019.0319. Epub 2020 Feb 24.
5
Network explanations and explanatory directionality.网络解释与解释的方向性。
Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190318. doi: 10.1098/rstb.2019.0318. Epub 2020 Feb 24.
6
From inert matter to the global society life as multi-level networks of processes.从惰性物质到作为多层次过程网络的全球社会生命。
Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190329. doi: 10.1098/rstb.2019.0329. Epub 2020 Feb 24.
7
Network architectures supporting learnability.支持可学习性的网络架构。
Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190323. doi: 10.1098/rstb.2019.0323. Epub 2020 Feb 24.
8
Hierarchy and levels: analysing networks to study mechanisms in molecular biology.层次和级别:分析网络以研究分子生物学中的机制。
Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190320. doi: 10.1098/rstb.2019.0320. Epub 2020 Feb 24.
9
Analysing brain networks in population neuroscience: a case for the Bayesian philosophy.在群体神经科学中分析大脑网络:贝叶斯哲学的一个案例。
Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190661. doi: 10.1098/rstb.2019.0661. Epub 2020 Feb 24.
10
General theory of topological explanations and explanatory asymmetry.拓扑解释的一般理论与解释的不对称性。
Philos Trans R Soc Lond B Biol Sci. 2020 Apr 13;375(1796):20190321. doi: 10.1098/rstb.2019.0321. Epub 2020 Feb 24.

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