Phenotype Design Space Provides a Mechanistic Framework Relating Molecular Parameters to Phenotype Diversity Available for Selection
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Title
Phenotype Design Space Provides a Mechanistic Framework Relating Molecular Parameters to Phenotype Diversity Available for Selection
Authors
Keywords
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Journal
JOURNAL OF MOLECULAR EVOLUTION
Volume 91, Issue 5, Pages 687-710
Publisher
Springer Science and Business Media LLC
Online
2023-08-25
DOI
10.1007/s00239-023-10127-y
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Note: Only part of the references are listed.- The Memory Problem for Neutral Mutational Models of Evolution
- (2022) David A. Liberles JOURNAL OF MOLECULAR EVOLUTION
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- ‘It will change everything’: DeepMind’s AI makes gigantic leap in solving protein structures
- (2020) Ewen Callaway NATURE
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- (2020) Cheloor Kovilakam Sruthi et al. ACS Omega
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- (2019) Peter A Lind et al. eLife
- Circadian Rhythms in Plants
- (2019) Nicky Creux et al. Cold Spring Harbor Perspectives in Biology
- Cryptic genetic variation accelerates evolution by opening access to diverse adaptive peaks
- (2019) Jia Zheng et al. SCIENCE
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- (2019) R. G. Brajesh et al. Scientific Reports
- Inferring the distribution of fitness effects of spontaneous mutations in Chlamydomonas reinhardtii
- (2019) Katharina B. Böndel et al. PLOS BIOLOGY
- The distribution of fitness effects among synonymous mutations in a gene under directional selection
- (2019) Eleonore Lebeuf-Taylor et al. eLife
- Phenotype-centric modeling for elucidation of biological design principles
- (2018) Miguel A. Valderrama-Gómez et al. JOURNAL OF THEORETICAL BIOLOGY
- Sign of selection on mutation rate modifiers depends on population size
- (2018) Yevgeniy Raynes et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Mutation dynamics and fitness effects followed in single cells
- (2018) Lydia Robert et al. SCIENCE
- Temperature drives diversification in a model adaptive radiation
- (2018) Quan-Guo Zhang et al. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
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- (2017) Xinzhu Wei et al. Genome Biology and Evolution
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- (2017) David T Fraebel et al. eLife
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- (2016) Maria A Nohales et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Genetic and epigenomic mechanisms of mammalian circadian transcription
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- Design Space Toolbox V2: Automated Software Enabling a Novel Phenotype-Centric Modeling Strategy for Natural and Synthetic Biological Systems
- (2016) Jason G. Lomnitz et al. Frontiers in Genetics
- Rapid Discrimination Among Putative Mechanistic Models of Biochemical Systems
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- (2015) Michael A. Stiffler et al. CELL
- Circadian Rhythms in Cyanobacteria
- (2015) Susan E. Cohen et al. MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS
- Determinants of spontaneous mutation in the bacteriumEscherichia colias revealed by whole-genome sequencing
- (2015) Patricia L. Foster et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Experimental evolution reveals hidden diversity in evolutionary pathways
- (2015) Peter A Lind et al. eLife
- Effects of new mutations on fitness: insights from models and data
- (2014) Thomas Bataillon et al. Annals of the New York Academy of Sciences
- FISHER'S GEOMETRIC MODEL WITH A MOVING OPTIMUM
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- (2014) Annalise B. Paaby et al. NATURE REVIEWS GENETICS
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- (2014) J. L. Payne et al. SCIENCE
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- (2013) Jeffrey E. Barrick et al. NATURE REVIEWS GENETICS
- The essential role of cAMP/Ca2+signalling in mammalian circadian timekeeping
- (2012) John S. O'Neill et al. BIOCHEMICAL SOCIETY TRANSACTIONS
- The Molecular Diversity of Adaptive Convergence
- (2012) O. Tenaillon et al. SCIENCE
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- (2011) Romain Gallet et al. GENETICS
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- (2010) A. B. Reams et al. GENETICS
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- (2010) Jeremy A. Draghi et al. NATURE
- Evolution of the mutation rate
- (2010) Michael Lynch TRENDS IN GENETICS
- Qualitatively distinct phenotypes in the design space of biochemical systems
- (2009) Michael A. Savageau et al. FEBS LETTERS
- Adaptive Divergence in Experimental Populations of Pseudomonas fluorescens. IV. Genetic Constraints Guide Evolutionary Trajectories in a Parallel Adaptive Radiation
- (2009) M. J. McDonald et al. GENETICS
- A tunable synthetic mammalian oscillator
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- Phenotypes and tolerances in the design space of biochemical systems
- (2009) M. A. Savageau et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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- A fast, robust and tunable synthetic gene oscillator
- (2008) Jesse Stricker et al. NATURE
- Genome-wide association studies for complex traits: consensus, uncertainty and challenges
- (2008) Mark I. McCarthy et al. NATURE REVIEWS GENETICS
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