On the Fundamental Nature and Evolution of the Genetic Code

Formation of the Codon Degeneracy during Interdependent Development between Metabolism and Replication

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Optimality properties of a proposed precursor to the genetic code

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Coding Coenzyme Handles and the Origin of the Genetic Code

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Genetic code: Chemical Distinctions of Protein Amino AcidsPreprint

Rakočević, M. M. (2017) · doi:10.31219/osf.io/86rjt · Cited by 4

Golden and Harmonic Mean in the Genetic CodePreprint

Rakočević, M. M. (2017) · doi:10.31219/osf.io/fzgjp · Cited by 4

The origin of genetic codes: from energy transformation to informatization

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Factors in Protobiomonomer Selection for the Origin of the Standard Genetic Code

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RNA life on the edge of catastrophe

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Aminoacyl-tRNA Synthetases as Clues to Establishment of the Genetic Code

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An Interpretation of the Ancestral Codon from Miller's Amino Acids and Nucleotide Correlations in Modern Coding Sequences

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Collective Evolution of Biological and Physical Systems

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The Coevolution of Genes and the Genetic Code

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Genetic code: the unity of chemism and semiosis A hypothesis (Synopsis)Preprint

Rakočević, M. M. (2021) · doi:10.31219/osf.io/me8sj · Cited by 3

The Impact of Message Mutation on the Fitness of a Genetic Code

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Life: The Physical Underpinnings of Replication

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Connections Between Mathematical Models of Prebiotic Evolution and Homochirality

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Evaluating Protein Structure Prediction Models with Evolutionary Algorithms

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Three phases in the evolution of the standard genetic code: how translation could get startedPreprint

van der Gulik, P. T. S. (2007) · arXiv (Cornell University) · doi:10.48550/arxiv.0711.0700 · Cited by 2

Leucine inhibition of an altered phenylalanyl-transfer ribonucleic acid synthetase

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Analogies of Genetic and Chemical Code. Supplement 1Preprint

Rakočević, M. M. (2020) · SSRN Electronic Journal · doi:10.2139/ssrn.3653365 · Cited by 2

Genetic code: Chemical Distinctions of Protein Amino AcidsPreprint

Rakočević, M. M. (2017) · doi:10.31227/osf.io/qb2p5 · Cited by 2

Genetic code as the unity of chemism and semiosisPreprint

Rakočević, M. M. (2022) · doi:10.31219/osf.io/3ubzr · Cited by 2

RNA-binding protein transcripts reflect composition of target mRNAs

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Robust error-minimization in the genetic code across physicochemical metrics and variant codes: A graph-theoretic analysis in GF(2)6

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Is Ours the Best of All Possible Codes?

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The constraints between amino acids influence the unequal distribution of codons and protein sequence evolution

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Highly Similar Average Collateral Effect of Synonymous Mutations Across Alternative Reading Frames: A Potential Role In Evolvability

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On plant nutrition in ex situ conservation strategies for rare and endangered plants

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Macromolecular simulations as an approach to the study of the origins of self-replicating systems

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Concurrent origins of the genetic code and the homochirality of life, and the origin and evolution of biodiversity. Part I: Observations and explanationsPreprint

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Null Codon-Based Models of Synonymous and Nonsynonymous Substitution From a Phylogenetic Perspective.

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HARMONY OF GENETIC CODEPreprint

Rakočević, M. M. (2017) · doi:10.31219/osf.io/c38rg · Cited by 1

Pathways of Early Evolution From the Perspectives of a Riboreplisome – The Ultimate RNA Machine of LifePreprint

Shirokikh, N. E. (2023) · Preprints.org · doi:10.20944/preprints202305.0415.v1 · Cited by 1

Semiotic nature of Genetic codePreprint

Rakočević, M. M. (2024) · ChemRxiv · doi:10.26434/chemrxiv-2024-1b9h7 · Cited by 1

Genetic Code Evolution in the RNA World and Beyond

Knight, R. D. (2002) · Natural computing series · doi:10.1007/978-3-642-55606-7_8 · Cited by 1

RNA in Formation : Computational Studies on RNA Structure and Evolution

Smit, S. (2008) · Digital Academic REpository of VU University Amsterdam (Vrije Universiteit Amsterdam)

Stochastic many-body problems in ecology, evolution, neuroscience, and systems biology

Butler, T. (2010) · Illinois Digital Environment for Access to Learning and Scholarship (University of Illinois at Urbana-Champaign)

Evolution of Epitope regions in HIV genome: Delineating Selective Forces acting on Conformational and Linear Epitopes

Perikala, S. K. (2010) · OhioLink ETD Center (Ohio Library and Information Network)

Unique properties of the canine papillomavirus type II E5 protein

Condjella, R. M. (2009) · ProQuest Demo Repository

Genetic Code Organization and Protein Structure

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Engineering the tryptophanyl tRNA synthetase and tRNATrp for the orthogonal expansion of the genetic code

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Analysis of tRNA abstract shapes of precursor/derivative amino acids in Archaea

Burbano, H. A., & Andrade, E. (2007) · Gene · doi:10.1016/j.gene.2007.02.024

An Ode to the Code: Evidence for Fine-Tuning in the Standard Codon Table

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A review of recent concepts of the problem of the origin of life

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Sobre el origen del código Genético

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On mathematical characterization of mutations

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Insect cholinesterases and irreversible inhibitors. Statistical treatment of data

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Genetic Code as a Harmonic System: three SupplementsPreprint

Rakočević, M. M. (2007) · arXiv (Cornell University) · doi:10.48550/arxiv.q-bio/0703011

Potential protein-encoded synthesis of DNA and RNA

Fu, X. (2014) · Hypothesis · doi:10.5779/hypothesis.vxxix.xxx

Role of minimization of chemical distances between amino acids in the evolution of the genetic code (amino acid properties/codon arrangement/codon plurality)

Wong, J. T.-F. (2016)

Inferring the Origin of the Genetic Code

Chiusano, M. L., Frusciante, L., & Toraldo, G. (2008) · Springer optimization and its applications · doi:10.1007/978-0-387-69319-4_17

Fall 2009 Emergent States of Matter Term Essay

Skinner, S. O. (2009)

Activation and inhibition of GTPase translation factors on the prokaryotic ribosome

Cedar, W. (2010)

Modeling and predicting super-secondary structures of transmembrane beta-barrel proteins

Tran, T. V. D. (2011) · HAL

Observations and perspectives on the prebiotic sequence evolutionPreprint

Li, D. J. (2018) · arXiv (Cornell University) · doi:10.48550/arxiv.1807.04665

Investigation of Codon Alternation Patterns in Genetic Diseases through Numerical Representation and Codon ClassificationPreprint

Sengupta, A., Chakraborty, S., Choudhury, P. P., Roy, S., Das, J. K., Mallick, D., & Jana, S. S. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.03.02.971036

Protein Synthesis

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Происхождение генетического кода и трансляции в рамках современных концепций происхождения жизни

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A review of recent concepts of the problem of the origin of life

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Origin of the Genetic Code: A Physical-Chemical Model of Primitive Codon Assignments

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Origin of the Genetic Code: A Physical-Chemical Model of Primitive Codon Assignments

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遗传密码的新排列和起源探讨

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Investigation of codon alternation patterns in two neurodegenerative diseases through numerical representation and codon classification

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Biological Catalysis and Information Storage Have Relied on N-Glycosyl Derivatives of β-D-Ribofuranose since the Origins of Life

Woźniak, K., & Brzeziński, K. (2023) · Biomolecules · doi:10.3390/biom13050782

Analysing the genetic code degeneracy: a consequence towards bacterial staining

Ezung, E., Sridevi, S., Banerjee, S., Ghosh, S. K., & Banerjee, R. (2023) · Journal of Biomolecular Structure and Dynamics · doi:10.1080/07391102.2023.2220813

Genetic code as a semiotic systemPreprint

Rakočević, M. M. (2024) · doi:10.31219/osf.io/6a45q

Rules governing the genetic code degeneracy/redundancy and spatial organization of the codon informative properties

Rapacioli, M., Katz, R. D., & Flores, V. (2024) · Frontiers in Applied Mathematics and Statistics · doi:10.3389/fams.2024.1340640

The Condensation of L ife

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Small amphipathic amino acids imprint the active site of extant E. coli aminoacyl-tRNA synthetases

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Molecular bases of proteome adaptation to high pressure in extremophilic Archaea

Caliò, A. (2022) · doi:10.70675/102a7c59zf0b0z40d1zb7a6zedd5e64b179f

Sharp combinatorial constraints on wobble robustness and coding architecture in the genetic codePreprint

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The Proteomic and Coevolutionary Roots of the Genetic Code

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Replicating lipid micelles: a feasible precursor to the origin of life and the earliest appearance of genomes

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Transition-pair structure and near-extremal third-position transition robustness in the standard genetic code

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Present status of the genetic code and the translation machinery

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Genetic Code: Evolution

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