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系统生物学会为生命科学提供全新的整体范式吗?

Will systems biology offer new holistic paradigms to life sciences?

作者信息

Conti Filippo, Valerio Maria Cristina, Zbilut Joseph P, Giuliani Alessandro

机构信息

Chemistry Department, University of Rome, 'La Sapienza', Rome, Italy.

出版信息

Syst Synth Biol. 2007 Dec;1(4):161-5. doi: 10.1007/s11693-008-9016-1. Epub 2008 May 30.

DOI:10.1007/s11693-008-9016-1
PMID:19003440
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC2553325/
Abstract

A biological system, like any complex system, blends stochastic and deterministic features, displaying properties of both. In a certain sense, this blend is exactly what we perceive as the "essence of complexity" given we tend to consider as non-complex both an ideal gas (fully stochastic and understandable at the statistical level in the thermodynamic limit of a huge number of particles) and a frictionless pendulum (fully deterministic relative to its motion). In this commentary we make the statement that systems biology will have a relevant impact on nowadays biology if (and only if) will be able to capture the essential character of this blend that in our opinion is the generation of globally ordered collective modes supported by locally stochastic atomisms.

摘要

生物系统与任何复杂系统一样,融合了随机和确定性特征,兼具两者的性质。从某种意义上说,这种融合正是我们所认为的“复杂性的本质”,因为我们倾向于将理想气体(完全随机,在大量粒子的热力学极限下在统计层面上是可理解的)和无摩擦摆(相对于其运动完全是确定性的)都视为非复杂系统。在本评论中,我们提出这样的观点:如果(且仅当)系统生物学能够捕捉到这种融合的本质特征,即由局部随机原子论所支持的全局有序集体模式的产生,那么它将对当今生物学产生重大影响。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3b2a/2553325/50b888f70622/11693_2008_9016_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3b2a/2553325/50b888f70622/11693_2008_9016_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3b2a/2553325/50b888f70622/11693_2008_9016_Fig1_HTML.jpg

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本文引用的文献

1
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2
Emergence of complexity in evolving niche-model food webs.演化中的生态位模型食物网中复杂性的出现。
J Theor Biol. 2008 Mar 7;251(1):108-20. doi: 10.1016/j.jtbi.2007.11.017. Epub 2007 Nov 21.
3
For the biotechnology industry, the penny drops (at last): genes are not autonomous agents but function within networks!对于生物技术产业来说,(终于)恍然大悟了:基因不是自主作用体,而是在网络中发挥作用!
开发预防性HIV疫苗需要解决逆向问题,而这是合理的疫苗设计无法实现的。
Front Immunol. 2018 Jan 12;8:2009. doi: 10.3389/fimmu.2017.02009. eCollection 2017.
4
Nature and Consequences of Biological Reductionism for the Immunological Study of Infectious Diseases.传染病免疫学研究中生物还原论的本质与影响
Front Immunol. 2017 May 31;8:612. doi: 10.3389/fimmu.2017.00612. eCollection 2017.
5
Finding Self-organization from the Dynamic Gene Expressions of Innate Immune Responses.从先天免疫反应的动态基因表达中发现自组织现象。
Front Physiol. 2012 Jun 11;3:192. doi: 10.3389/fphys.2012.00192. eCollection 2012.
6
Fractal analysis in a systems biology approach to cancer.分形分析在癌症系统生物学方法中的应用。
Semin Cancer Biol. 2011 Jun;21(3):175-82. doi: 10.1016/j.semcancer.2011.04.002. Epub 2011 Apr 13.
7
So what do we really mean when we say that systems biology is holistic?那么,当我们说系统生物学是整体论的时候,我们真正的意思是什么呢?
BMC Syst Biol. 2010 Mar 12;4:22. doi: 10.1186/1752-0509-4-22.
8
Collective motions and specific effectors: a statistical mechanics perspective on biological regulation.集体运动与特定效应器:生物学调控的统计力学观点。
BMC Genomics. 2010 Feb 10;11 Suppl 1(Suppl 1):S2. doi: 10.1186/1471-2164-11-S1-S2.
Bioessays. 2007 Dec;29(12):1179-81. doi: 10.1002/bies.20685.
4
The next step in biology: a periodic table?
J Biosci. 2007 Aug;32(5):1005-8. doi: 10.1007/s12038-007-0099-8.
5
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PLoS One. 2007 Jun 27;2(6):e562. doi: 10.1371/journal.pone.0000562.
6
Gene expression waves. Cell cycle independent collective dynamics in cultured cells.基因表达波。培养细胞中与细胞周期无关的集体动力学。
FEBS J. 2007 Jun;274(11):2878-86. doi: 10.1111/j.1742-4658.2007.05822.x. Epub 2007 Apr 26.
7
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Mol Syst Biol. 2007;3:106. doi: 10.1038/msb4100147. Epub 2007 Apr 24.
8
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9
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Biochem Biophys Res Commun. 2005 Mar 11;328(2):383-92. doi: 10.1016/j.bbrc.2004.12.184.
10
Biological robustness.生物稳健性。
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