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Genome modularity and synthetic biology: Engineering systems

Progress in Biophysics and Molecular Biology, 2018
Whole genome sequencing projects running in various laboratories around the world has generated immense data. A systematic phylogenetic analysis of this data shows that genome complexity goes on decreasing as it evolves, due to its modular nature.
Milsee, Mol   +2 more
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The chemical biology of modular biosynthetic enzymes

Chemical Society Reviews, 2009
Fatty acid synthase (FAS), polyketide synthase (PKS), and nonribosomal peptide synthetase (NRPS) modular biosynthetic enzymes are responsible for the production of a multitude of structurally diverse and biologically important small molecule natural products. Traditional biochemical and genetic studies of these enzymes have contributed substantially to
Jordan L, Meier, Michael D, Burkart
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High-Performance Whole-Cell Simulation Exploiting Modular Cell Biology Principles

Journal of Chemical Information and Modeling, 2021
One of the grand challenges of this century is modeling and simulating a whole cell. Extreme regulation of an extensive quantity of model and simulation data during whole-cell modeling and simulation renders it a computationally expensive research problem in systems biology.
Barnali Das, Pralay Mitra
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MIDAS: A Modular DNA Assembly System for Synthetic Biology

ACS Synthetic Biology, 2018
A modular and hierarchical DNA assembly platform for synthetic biology based on Golden Gate (Type IIS restriction enzyme) cloning is described. This enabling technology, termed MIDAS (for Modular Idempotent DNA Assembly System), can be used to precisely assemble multiple DNA fragments in a single reaction using a standardized assembly design. It can be
Craig J. van Dolleweerd   +7 more
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Modularity and emergence: biology’s challenge in understanding life

Plant Biology, 2012
AbstractThis essay juxtaposes modularity and emergence in the consideration of biological systems at various scalar levels of spatio‐temporal organisation. It is noted that reductionism, specialisation and modularity are basic prerequisites for understanding life. It is realised that increased progress of scientific biology in elucidating mechanisms at
exaly   +3 more sources

ChemInform Abstract: The Chemical Biology of Modular Biosynthetic Enzymes

ChemInform, 2009
AbstractChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Jordan L. Meier, Michael D. Burkart
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Hierarchical thinking in network biology: the unbiased modularization of biochemical networks

Trends in Biochemical Sciences, 2004
As reconstructed biochemical reaction networks continue to grow in size and scope, there is a growing need to describe the functional modules within them. Such modules facilitate the study of biological processes by deconstructing complex biological networks into conceptually simple entities.
Jason A, Papin   +2 more
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KR05 Concepts of Modularity in Systems Engineering and Developmental Biology

INCOSE International Symposium, 2008
AbstractSystems Engineering and Systems Science are separate fields with some common ground. Systems Engineering generally deals with the creation of purpose‐built manmade systems. Its practitioners generally have engineering backgrounds. The prominent professional organization for Systems Engineering is INCOSE. The term “Systems Science” is often used
Timothy Crabtree, Cihan Dagli‐UMR
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Toward Modularity in Synthetic Biology: Design Patterns and Fan-out

2011
Modularity is a concept that is widely used in biological science with various interpretations. In this chapter we will first give a general overview of modularity in biology, and later focus on modularity in synthetic biology. In engineering, a module is a component whose intrinsic functionality is independent of its surrounding milieu.
Kyung Hyuk Kim
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Modular Organization and Emergence in Systems Biology

2019
Understanding, how cellular functions emerge from the interaction of biological components, is the main goal of systems biology. Here, we review the relevance of a modular organization and the emergence of collective dynamical states in systems biology and show that the concept of networks (i.e., the representation of biological systems in terms of ...
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