Systems Biology and Intelligent Design: A Natural Fit

AmiGO, biological networks, biology, computers, coordination, Darwinian evolution, data networks, datasets, E. coli, Engineering, Gene Ontology, genomics, glycolysis, Intelligent Design, Introduction to Systems Biology, isoforms, Joel Bader, Junk DNA, living systems, long non-coding RNAs, metabolomics, molecular biology, Molecular Systems Biology, mRNA, mutations, optimal design, optimism, proteins, proteomics, reductionist biology, Rube Goldberg, Ruedi Aebersold, smartphones, Systems Biology, Technology, transcription network, transcriptomics, Uri Alon, Yuri Lazebnik
In December 2025, Molecular Systems Biology marked its 20th anniversary with a special editorial that reflects on the field’s development since 2005 (Bheda et al. 2025). Systems biology is an approach to studying living systems that assumes hierarchical, top-down design. The piece, authored by the journal’s editors and several contributors, shares personal perspectives on where the field stands today — and where it is headed. Ruedi Aebersold, the first contributor, states, “the first 20 years of MSB were grand; the next 20 years will be grander.”  I too am optimistic about the field’s future. My optimism comes specifically from how powerfully top-down design has succeeded in giving us the complex systems of the modern world. Top-down design prunes the vast search space of possibilities through an Read More › Source
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Year in Review: Demonstrating the Power of the Intelligent Design Framework in Biology

anatomy, biologists, biology, biomimicry, blood flow, brain, CELS, Conference on Engineering in Living Systems, design reuse, Emily Reeves, Engineering, Engineering Research Group, engineers, genetic profiles, genetic variation, genome architecture, Gerald Fudge, glycolysis, Intelligent Design, James Clayton Prize, James Johansen, living systems, Macroevolution, Michael Egnor, Microevolution, modularity, optimality, pathology, physicians, physiology, Research, robustness, Stuart Burgess, systems engineering, Texas A&M, theory of biological design, Windkessel
Our scientists and engineers have further laid the foundation for a comprehensive and actionable theory of biological design. Source
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Emily Reeves: How to Study Biology with Systems Engineering Principles

ATP synthase, bacterial flagellar motor, biological systems, biologists, biology, cancer, Emily Reeves, engineered systems, engineers, glycolysis, ID The Future, Intelligent Design, Life Sciences, living systems, methodology, nanotechnology, Photosystem I, Podcast, Research, scientific literature, systems engineering, Warburg effect
Traditional methods in biology have proven insufficient for understanding and accurately predicting complex biological systems. Why? Source
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Challenges to the Evolutionary Origins of the Glycolytic Pathway

adenosine triphosphate, amino acids, ATP, biochemical pathway, causal circularity, cellular respiration, citric acid cycle, Complexity, condensation reaction, electron transport chain, Engineering, enzymes, Evolution, fructose, glycolysis, glycolytic pathway, hexokinase, hinge, Intelligent Design, Keith Webster, mind, oxidative phosphorylation, oxygen, phosphofructokinase, pyruvate, unguided evolution, universal common ancestor, water
The complexity and engineering sophistication comport much better with the hypothesis of design. Source
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In Breath-Holding, Kate Winslet and a Croc Are Champions

actors, amoeba, blood, breath-holding, breathing, cellular respiration, chest cavity, cold-bloodedness, Complexity, connective tissue, crocodiles, Current Biology, Darwinism, engineers, Evolution, gastrointestinal system, glucose, glycolysis, heart, hematological system, hyperventilating, Intelligent Design, Kate Winslet, life, lungs, oxygen, physicians, pulmonary arteries, red blood cells, respiratory system, Science Daily, Steve Laufmann, Wall Street Journal, warm-bloodedness, Your Designed Body
Kate Winslet, and other actors, for the sake of “the newest frontier in blockbuster moviemaking” are learning to hold their breath for several minutes. Source
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Game Over? Nick Lane Wants Another Inning

acetyl phosphate, adenine, ATP synthase, baseball diamond, biology, Evolution, genetic information, gluconeogenesis, glycolysis, hydrothermal vents, Intelligent Design, John E. Walker, Krebs cycle, Lehigh University, metabolic process, Michael Behe, Miller-Urey experiment, Nick Lane, PLOS Biology, protocell, protometabolism, purine, referee, University College London, World Magazine
Michael Behe described how he attended a conference to hear Nobel laureate John Walker, the world’s expert on ATP synthase, explain how it might have evolved.  Source
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Optimality Recognized in Core Biological Infrastructure

"poor design", amino acids, Athel Cornish-Bowden, biology, biology textbooks, carbon, constraints, development, Drosophila, elements, embryology, Erika DeBenedictis, glycolysis, human engineers, human genome, Intelligent Design, María Luz Cárdenas-Cerda, metabolism, Michael Denton, natural amino acids, optimality, Pareto optimality, Princeton University, TEDx talk, William Bialek
I will begin with an example from embryology, then turn to metabolism, and finish with the breadth of chemical space covered by the natural amino acids. Source
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