Alberts et al. — From DNA to RNA
Author:
Bruce Alberts; Alexander Johnson; Julian Lewis; Martin Raff; Keith Roberts; Peter Walter
From DNA to RNA • Molecular Biology of the Cell, 4th edition • 2002
Scientific Reference
Neutral
Used in this investigation
Evidence
-
DNA and the Storage of Biological Information
—
Information Processing
-
Genes, Regulation, and the Control of Cellular Activity
—
Gene Expression
-
Transcription: From DNA to RNA
—
Scientific Foundation
Questions & Objections
-
Is DNA Really Information, or Is That Just a Metaphor?
—
Information Processing
Alberts et al. — From RNA to Protein
Author:
Bruce Alberts; Alexander Johnson; Julian Lewis; Martin Raff; Keith Roberts; Peter Walter
From RNA to Protein • Molecular Biology of the Cell, 4th edition • 2002
Scientific Reference
Neutral
Used in this investigation
Evidence
-
The Genetic Code
—
Scientific Foundation
-
Transfer RNA and Molecular Recognition
—
Scientific Foundation
-
Aminoacyl-tRNA Synthetases and Correct Amino-Acid Assignment
—
Scientific Foundation
-
The Ribosome and Protein Translation
—
Scientific Foundation
-
Accuracy, Error Correction, and Quality Control
—
Scientific Foundation
-
Biological Information as an Integrated System
—
Scientific Foundation
Alberts et al. — Structure and Function of DNA
Author:
Bruce Alberts; Alexander Johnson; Julian Lewis; Martin Raff; Keith Roberts; Peter Walter
The Structure and Function of DNA • Molecular Biology of the Cell, 4th edition • 2002
Scientific Reference
Neutral
Used in this investigation
Evidence
-
DNA and the Storage of Biological Information
—
Scientific Foundation
-
Functional Information in DNA Sequences
—
Sequence Foundation
Questions & Objections
-
Is DNA Really Information, or Is That Just a Metaphor?
—
Molecular Foundation
Woese et al. — Aminoacyl-tRNA Synthetases and the Genetic Code
Author:
Carl R. Woese; Gary J. Olsen; Michael Ibba; Dieter Söll
Aminoacyl-tRNA Synthetases, the Genetic Code, and the Evolutionary Process • Microbiology and Molecular Biology Reviews • 2000
Scientific Review
Neutral
DOI:
10.1128/MMBR.64.1.202-236.2000
Used in this investigation
Evidence
-
The Origin and Evolution of the Genetic Code
—
Synthetase Context
-
The Origin of the Translation System
—
Dependency Problem
-
Biological Information as an Integrated System
—
System Integration
Explanations
-
Chemical Constraint and Stereochemical Affinity
—
Molecular Context
Questions & Objections
-
Does the Genetic Code Have to Be Designed Because It Is a Code?
—
Molecular Context
Carter and Wolfenden — tRNA and Amino Acid Chemistry
Author:
Charles W. Carter Jr.; Richard Wolfenden
tRNA Acceptor-Stem and Anticodon Bases Embed Separate Features of Amino Acid Chemistry • RNA Biology • 2016
Journal Article
Neutral
DOI:
10.1080/15476286.2015.1112488
Used in this investigation
Evidence
-
The Genetic Code
—
Coding Relationship
-
Transfer RNA and Molecular Recognition
—
Molecular Recognition
-
Aminoacyl-tRNA Synthetases and Correct Amino-Acid Assignment
—
Recognition System
-
Accuracy, Error Correction, and Quality Control
—
Recognition Context
ENCODE Consortium — Expanded Encyclopaedias of DNA Elements
Author:
ENCODE Project Consortium; Jill E. Moore; Michael J. Purcaro; et al.
Expanded Encyclopaedias of DNA Elements in the Human and Mouse Genomes • Nature • 2020
Journal Article
Neutral
DOI:
10.1038/s41586-020-2493-4
Used in this investigation
Evidence
-
Functional Information in DNA Sequences
—
Scientific Foundation
-
Genes, Regulation, and the Control of Cellular Activity
—
Scientific Foundation
-
Transcription: From DNA to RNA
—
Regulatory Context
Koonin — The Meaning of Biological Information
Author:
Eugene V. Koonin
The Meaning of Biological Information • Philosophical Transactions of the Royal Society A • 2016
Scientific Review
Neutral
DOI:
10.1098/rsta.2015.0065
Used in this investigation
Questions & Objections
-
Is DNA Really Information, or Is That Just a Metaphor?
—
Scientific Foundation
-
Does Natural Selection Explain the Origin of Biological Information?
—
Scientific Foundation
Koonin — Frozen Accident and the Genetic Code
Author:
Eugene V. Koonin
Frozen Accident Pushing 50: Stereochemistry, Expansion, and Chance in the Evolution of the Genetic Code • 2017
Scientific Review
Neutral
Used in this investigation
Explanations
-
Chemical Constraint and Stereochemical Affinity
—
Scientific Qualification
-
Coevolution, Selection, and Code Expansion
—
Qualification
-
Historical Contingency and Frozen Accident
—
Scientific Foundation
Questions & Objections
-
Does Evolution of the Genetic Code Undermine a Design Argument?
—
Historical Contingency
Koonin and Novozhilov — Origin and Evolution of the Genetic Code
Author:
Eugene V. Koonin; Artem S. Novozhilov
Origin and Evolution of the Genetic Code: The Universal Enigma • 2009
Scientific Review
Neutral
Used in this investigation
Evidence
-
The Origin and Evolution of the Genetic Code
—
Origin Models
Explanations
-
Chemical Constraint and Stereochemical Affinity
—
Scientific Foundation
-
Historical Contingency and Frozen Accident
—
Code Evolution
Questions & Objections
-
Does the Genetic Code Have to Be Designed Because It Is a Code?
—
Scientific Foundation
-
Does Evolution of the Genetic Code Undermine a Design Argument?
—
Code Evolution
-
Is the Biological Information Argument Just Another God-of-the-Gaps Argument?
—
Scientific Foundation
Koonin and Novozhilov — Universal Genetic Code
Author:
Eugene V. Koonin; Artem S. Novozhilov
Origin and Evolution of the Universal Genetic Code • 2017
Scientific Review
Neutral
Used in this investigation
Evidence
-
The Origin and Evolution of the Genetic Code
—
Scientific Foundation
Explanations
-
Coevolution, Selection, and Code Expansion
—
Scientific Foundation
-
Historical Contingency and Frozen Accident
—
Broader Context
-
Purposeful Design
—
Scientific Context
Questions & Objections
-
Does Natural Selection Explain the Origin of Biological Information?
—
Evolutionary Model
-
Does the Genetic Code Have to Be Designed Because It Is a Code?
—
Origin Models
-
Does Evolution of the Genetic Code Undermine a Design Argument?
—
Scientific Foundation
Cooper — Expression of Genetic Information
Author:
Geoffrey M. Cooper
Expression of Genetic Information • The Cell: A Molecular Approach, 2nd edition • 2000
Scientific Reference
Neutral
Used in this investigation
Evidence
-
The Genetic Code
—
Experimental Context
-
Transfer RNA and Molecular Recognition
—
Broader Context
-
Aminoacyl-tRNA Synthetases and Correct Amino-Acid Assignment
—
Broader Context
-
The Ribosome and Protein Translation
—
Translation Context
Fox — Origin and Evolution of the Ribosome
Author:
George E. Fox
Origin and Evolution of the Ribosome • Cold Spring Harbor Perspectives in Biology • 2010
Scientific Review
Neutral
DOI:
10.1101/cshperspect.a003483
Used in this investigation
Evidence
-
The Origin of the Translation System
—
Ribosome Evolution
-
Biological Information as an Integrated System
—
Ribosome Context
Wills — Origins of Genetic Coding by Self-Organisation
Author:
Peter R. Wills
Origins of Genetic Coding: Self-Guided Molecular Self-Organisation • Entropy • 2023
Journal Article
Neutral
DOI:
10.3390/e25091281
Used in this investigation
Explanations
-
Self-Organization and Emergent Coding
—
Scientific Foundation
-
Purposeful Design
—
Alternative Explanation
Questions & Objections
-
Can Self-Organization Produce Biological Information?
—
Scientific Foundation
-
Is the Biological Information Argument Just Another God-of-the-Gaps Argument?
—
Alternative Explanation
de Farias et al. — Evolution of tRNA and the Translation System
Author:
Savio T. de Farias; Thaís G. do Rêgo; Marco V. José
Evolution of Transfer RNA and the Origin of the Translation System • Frontiers in Genetics • 2014
Scientific Review
Neutral
DOI:
10.3389/fgene.2014.00303
Used in this investigation
Evidence
-
The Origin and Evolution of the Genetic Code
—
Coevolution Model
-
The Origin of the Translation System
—
Trna Evolution
Explanations
-
Coevolution, Selection, and Code Expansion
—
Coevolution Model
Meyer — Signature in the Cell
Author:
Stephen C. Meyer
Signature in the Cell: DNA and the Evidence for Intelligent Design • 2009
Id Source
Supports Design
Used in this investigation
Evidence
-
The Origin and Evolution of the Genetic Code
—
Design Interpretation
-
The Origin of the Translation System
—
Design Interpretation
-
Biological Information as an Integrated System
—
Design Interpretation
Explanations
-
Purposeful Design
—
Design Interpretation
Questions & Objections
-
Is DNA Really Information, or Is That Just a Metaphor?
—
Design Interpretation
-
Does Natural Selection Explain the Origin of Biological Information?
—
Design Interpretation
-
Does the Genetic Code Have to Be Designed Because It Is a Code?
—
Design Interpretation
-
Can Self-Organization Produce Biological Information?
—
Design Interpretation
-
Does Evolution of the Genetic Code Undermine a Design Argument?
—
Design Interpretation
-
Is the Biological Information Argument Just Another God-of-the-Gaps Argument?
—
Design Interpretation
Hordijk and Steel — Autocatalytic Networks at the Basis of Life
Author:
Wim Hordijk; Mike Steel
Autocatalytic Networks at the Basis of Life's Origin and Organization • 2018
Scientific Review
Neutral
Used in this investigation
Explanations
-
Self-Organization and Emergent Coding
—
Systems Context
Questions & Objections
-
Can Self-Organization Produce Biological Information?
—
Systems Context
Wolf and Koonin — Origin of Translation and the Genetic Code
Author:
Yuri I. Wolf; Eugene V. Koonin
On the Origin of the Translation System and the Genetic Code in the RNA World by Means of Natural Selection, Exaptation, and Subfunctionalization • Biology Direct • 2007
Scientific Paper
Neutral
DOI:
10.1186/1745-6150-2-14
Used in this investigation
Evidence
-
The Origin of the Translation System
—
Scientific Foundation
-
Biological Information as an Integrated System
—
Origin Model
Explanations
-
Coevolution, Selection, and Code Expansion
—
Selection Model
-
Self-Organization and Emergent Coding
—
Evolutionary Context
-
Purposeful Design
—
Alternative Explanation
Questions & Objections
-
Does Natural Selection Explain the Origin of Biological Information?
—
Origin Model
-
Can Self-Organization Produce Biological Information?
—
Evolutionary Context
-
Is the Biological Information Argument Just Another God-of-the-Gaps Argument?
—
Alternative Explanation
