Systems Biology Through the Concept of Emergence

Kolodkin, Alexey

doi:10.1007/978-3-319-47000-9_17

Cited by 5 publications

(4 citation statements)

References 219 publications

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“…The difference is mostly in the values of the parameters, for example, in the expression levels of certain enzymes. Thus, a generic blueprint model can be built and then parameterized for every particular instantiation, for example, for every specific organism or condition ( Kolodkin, 2017 ).…”

Section: Discussionmentioning

confidence: 99%

Subcellular compartmentalization of the plant antioxidant system: an integrated overview

Bobrovskikh

Зубаирова

Kolodkin

et al. 2020

PeerJ

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The antioxidant system (AOS) maintains the optimal concentration of reactive oxygen species (ROS) in a cell and protects it against oxidative stress. In plants, the AOS consists of seven main classes of antioxidant enzymes, low-molecular antioxidants (e.g., ascorbate, glutathione, and their oxidized forms) and thioredoxin/glutaredoxin systems which can serve as reducing agents for antioxidant enzymes. The number of genes encoding AOS enzymes varies between classes, and same class enzymes encoded by different gene copies may have different subcellular localizations, functional loads and modes of evolution. These facts hereafter reinforce the complex nature of AOS regulation and functioning. Further studies can describe new trends in the behavior and functioning of systems components, and provide new fundamental knowledge about systems regulation. The system is revealed to have a lot of interactions and interplay pathways between its components at the subcellular level (antioxidants, enzymes, ROS level, and hormonal and transcriptional regulation). These facts should be taken into account in further studies during the AOS modeling by describing the main pathways of generating and utilizing ROS, as well as the associated signaling processes and regulation of the system on cellular and organelle levels, which is a complicated and ambitious task. Another objective for studying the phenomenon of the AOS is related to the influence of cell dynamics and circadian rhythms on it. Therefore, the AOS requires an integrated and multi-level approach to study. We focused this review on the existing scientific background and experimental data used for the systems biology research of the plant AOS.

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Section: Discussionmentioning

confidence: 99%

Subcellular compartmentalization of the plant antioxidant system: an integrated overview

Bobrovskikh

Зубаирова

Kolodkin

et al. 2020

PeerJ

Self Cite

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“…Hofmeyr, 2017, p. 121). Las propiedades causales de las entidades se hallan ligadas, no ya solo a procesos alternativos que acaecen a distintos niveles de regulación, sino al mismo sistema en su conjunto (Kolodkin, 2017). Estas consideraciones hacen ver que constituye una severa equivocación sostener una comprensión mereológica adjuntando al nivel genético la etiqueta del depositario último de la especificidad causal (cfr.…”

Section: De Los Sistemas Agregativos a Los Sistemas Integrados Hacia ...unclassified

Una articulación filosófica de la epidemiología epigenética

Martín Villuendas

2023

Tópicos (México)

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Múltiples estudios experimentales han iluminado el potencial papel que las alteraciones epigenéticas podrían jugar en el inicio y estabilización de las enfermedades. Estas investigaciones han motivado el surgimiento de una nueva disciplina conocida como epidemiología epigenética. Este artículo tiene dos objetivos fundamentales. Primero, analizar y clarificar las principales dificultades epistemológicas, ontológicas y metodológicas que enfrenta la articulación de esta nueva disciplina científica. Segundo, estructurar un marco filosófico alternativo e innovador basado en un pluralismo científico que permita, en último término, integrar la epidemiología epigenética dentro de la actual práctica médica.

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“…At the core are the concepts of emergence and interrelatedness, that a system is more than the sum of its parts. (Patel and Mehta 2016;Greene et al, 2017;Kolodkin, 2017).…”

Section: A Systems Approachmentioning

confidence: 99%

How 3D Printing Is Reshaping Translational Research

Sigston

2021

Front. Bioeng. Biotechnol.

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“Translational Research” has traditionally been defined as taking basic scientific findings and developing new diagnostic tools, drugs, devices and treatment options for patients, that are translated into practice, reach the people and populations for whom they are intended and are implemented correctly. The implication is of a unidirectional flow from “the bench to bedside”. The rapidly emergent field of additive manufacturing (3D printing) is contributing to a major shift in translational medical research. This includes the concept of bidirectional or reverse translation, early collaboration between clinicians, bio-engineers and basic scientists, and an increasingly entrepreneurial mindset. This coincides with, and is strongly complemented by, the rise of systems biology. The rapid pace at which this type of translational research can occur brings a variety of potential pitfalls and ethical concerns. Regulation surrounding implantable medical devices is struggling to keep up. 3D printing has opened the way for personalization which can make clinical outcomes hard to assess and risks putting the individual before the community. In some instances, novelty and hype has led to loss of transparency of outcomes with dire consequence. Collaboration with commercial partners has potential for conflict of interest. Nevertheless, 3D printing has dramatically changed the landscape of translational research. With early recognition and management of the potential risks, the benefits of reshaping the approach to translational research are enormous. This impact will extend into many other areas of biomedical research, re-establishing that science is more than a body of research. It is a way of thinking.

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Systems Biology Through the Concept of Emergence

Cited by 5 publications

References 219 publications

Subcellular compartmentalization of the plant antioxidant system: an integrated overview

Subcellular compartmentalization of the plant antioxidant system: an integrated overview

Una articulación filosófica de la epidemiología epigenética

How 3D Printing Is Reshaping Translational Research

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