William R Atchley

Works (37)

Updated: August 16th, 2024 13:37

2012 journal article

A novel N-terminal domain may dictate the glucose response of Mondo proteins

PLoS One, 7(4).

By: L. McFerrin & W. Atchley

Source: NC State University Libraries
Added: August 6, 2018

2011 journal article

Evolution of the Max and Mlx Networks in Animals

GENOME BIOLOGY AND EVOLUTION, 3, 915–937.

By: L. McFerrin n & W. Atchley n

author keywords: protein evolution; basic-helix-loop-helix-leucine zipper (bHLHZ) domain; Myc/Max/Mad network; Mlx and Mondo Network; phylogenetic tree; discriminant analysis
MeSH headings : Amino Acid Sequence; Animals; Basic Helix-Loop-Helix Leucine Zipper Transcription Factors / chemistry; Basic Helix-Loop-Helix Leucine Zipper Transcription Factors / genetics; Basic-Leucine Zipper Transcription Factors / classification; Basic-Leucine Zipper Transcription Factors / genetics; Binding Sites; Evolution, Molecular; Gene Expression Regulation; Gene Regulatory Networks / genetics; Humans; Molecular Sequence Data; Multigene Family; Phylogeny; Protein Structure, Tertiary; Sequence Homology, Amino Acid; Synteny / genetics
TL;DR: These analyses on Max and Mlx network members provide a model for characterizing the evolution of TFs involved in essential networks, and identify clear relationships among protein families with distinct points of radiation and divergence. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2011 journal article

Joint analysis of transcriptional and post-transcriptional brain tumor data: searching for emergent properties of cellular systems

BMC Bioinformatics, 12.

By: R. Fronza, M. Tramonti, W. Atchley & C. Nardini

Source: NC State University Libraries
Added: August 6, 2018

2011 article

Walter M. Fitch (1929-2011)

Atchley, W. R. (2011, May 13). SCIENCE, Vol. 332, pp. 804–804.

By: W. Atchley n

MeSH headings : Evolution, Molecular; History, 20th Century; History, 21st Century; Periodicals as Topic / history; Societies, Scientific / history; Societies, Scientific / organization & administration; United States
TL;DR: Walter Monroe Fitch, founder of the field of molecular phylogenetics and strongly promoted the widespread teaching of evolution, passed away in Irvine, California, on 10 March at the age of 81. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Source: Web Of Science
Added: August 6, 2018

2008 journal article

Biochemical and functional evidence of p53 homology is inconsistent with molecular phylogenetics for distant sequences

JOURNAL OF MOLECULAR EVOLUTION, 67(1), 51–67.

By: A. Fernandes n & W. Atchley n

author keywords: p53; p63; p73; beta-Sandwich; transcription factor; p731
MeSH headings : Animals; Arthropods / genetics; DNA-Binding Proteins / classification; Evolution, Molecular; Genes, p53; Mollusca / genetics; Nematoda / genetics; Nuclear Proteins / classification; Phylogeny; Sequence Homology, Amino Acid; Tumor Protein p73; Tumor Suppressor Protein p53 / chemistry; Tumor Suppressor Protein p53 / classification; Tumor Suppressor Proteins / classification; Urochordata / genetics
TL;DR: The study shows that the biochemical and functional evidence of p53 homology for nematodes, arthropods, and protists is inconsistent with their implied phylogenetic relationship within the overall family, and suggests that p63 is a far more appropriate protein for comparison. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2008 journal article

Hepatic endopolyploidy as a cellular consequence of age-specific selection for rate of development in mice

JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION, 310B(5), 385–397.

By: J. Funk-Keenan n, F. Haire n, S. Woolard n & W. Atchley n

MeSH headings : Aging / genetics; Aging / pathology; Animals; Female; Flow Cytometry; Growth; Liver / metabolism; Liver / pathology; Male; Mice; Mice, Inbred ICR; Polyploidy
TL;DR: This work searches for endopolyploidy in the liver in response to age-specific restricted index selection for the rate of development in mice, finding lines selected for divergence in early growth and late growth are divergent in frequency of polyploid cells. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2008 journal article

Site-specific evolutionary rates in proteins are better modeled as non-independent and strictly relative

BIOINFORMATICS, 24(19), 2177–2183.

By: A. Fernandes n & W. Atchley n

MeSH headings : Algorithms; Animals; Basic-Leucine Zipper Transcription Factors / chemistry; Basic-Leucine Zipper Transcription Factors / genetics; Computational Biology; Databases, Protein; Evolution, Molecular; Genes, myc; Humans; Proteins / chemistry; Proteins / genetics; Sequence Alignment; Tumor Suppressor Protein p53 / chemistry; Tumor Suppressor Protein p53 / genetics
TL;DR: An algorithm to simultaneously infer the set of n-1 relative rates that parameterize the likelihood of an n-site alignment is described, allowing for the first time coherent simultaneous inference of branch-lengths and site-specific evolutionary rates. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (Web of Science)
Source: Web Of Science
Added: August 6, 2018

2007 journal article

Application of complex demodulation on bZIP and bHLH-PAS protein domains

Mathematical Biosciences, 207(2), 204–218.

By: Z. Wang n, C. Smith n & W. Atchley n

MeSH headings : Algorithms; Amino Acid Motifs; Amino Acid Sequence; Aryl Hydrocarbon Receptor Nuclear Translocator / chemistry; Basic Helix-Loop-Helix Transcription Factors / chemistry; Basic-Leucine Zipper Transcription Factors / chemistry; Computational Biology / methods; Databases, Protein; Entropy; Factor Analysis, Statistical; Fourier Analysis; Humans; Molecular Sequence Data; Protein Structure, Secondary; Protein Structure, Tertiary; Proto-Oncogene Proteins c-fos / chemistry
TL;DR: This work analyzed bZIP and bHLH-PAS protein domains and introduced complex demodulation (CDM) to detect functional regions in protein sequences data and found that the local amplitude minimum or local amplitude maximum of the 3.6-aa periodic component is associated with protein structural or functional information. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: NC State University Libraries
Added: August 6, 2018

2006 journal article

Molecular architecture of the DNA-binding region and its relationship to classification of basic helix-loop-helix proteins

MOLECULAR BIOLOGY AND EVOLUTION, 24(1), 192–202.

By: W. Atchley n & J. Zhao n

author keywords: computational biology; bHLH proteins; molecular architecture; multivariate statistics; DNA-binding specificity; molecular evolution
MeSH headings : Animals; Basic Helix-Loop-Helix Transcription Factors / chemistry; Basic Helix-Loop-Helix Transcription Factors / classification; Basic Helix-Loop-Helix Transcription Factors / genetics; Basic Helix-Loop-Helix Transcription Factors / metabolism; Binding Sites; Codon / genetics; DNA / metabolism; Dimerization; Humans; Hydrophobic and Hydrophilic Interactions; Protein Structure, Secondary; Protein Structure, Tertiary; Static Electricity
TL;DR: Using multivariate statistical analyses, discriminant analyses describe the multidimensional aspects of physiochemical variation and clarify the structural basis of the prevailing evolutionary classification of basic helix-loop-helix proteins. (via Semantic Scholar)
UN Sustainable Development Goal Categories
10. Reduced Inequalities (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2005 journal article

Networks of coevolving sites in structural and functional domains of serpin proteins

MOLECULAR BIOLOGY AND EVOLUTION, 22(7), 1627–1634.

By: M. Buck n & W. Atchley n

author keywords: serpin; factor analysis; coevolution; covariation; protein structure; mutual information
MeSH headings : Amino Acids / chemistry; Animals; Crystallography, X-Ray; Evolution, Molecular; Factor Analysis, Statistical; Multivariate Analysis; Phylogeny; Protein Conformation; Protein Folding; Protein Structure, Secondary / genetics; Sequence Analysis, Protein; Serine Proteinase Inhibitors; Serpins / chemistry; Serpins / physiology; Structure-Activity Relationship
TL;DR: This research provides a better understanding on how protein structure evolves and elucidates the selective forces creating coevolution among protein sites. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2005 journal article

Sequence signatures and the probabilistic identification of proteins in the Myc-Max-Mad network

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 102(18), 6401–6406.

By: W. Atchley n & A. Fernandes n

author keywords: Myc; predictive motif; transcription factor; oncoprotein; molecular evolution
MeSH headings : Amino Acid Sequence / genetics; Basic-Leucine Zipper Transcription Factors; Computational Biology / methods; DNA-Binding Proteins / genetics; Fuzzy Logic; Genetic Variation; Genomics / methods; Helix-Loop-Helix Motifs / genetics; Molecular Sequence Data; Protein Conformation; Proto-Oncogene Proteins c-myc / genetics; Repressor Proteins / genetics; Sequence Alignment; Sequence Homology; Transcription Factors / genetics
TL;DR: A small set of amino acid sites from the N-terminal portion of the basic helix-loop-helix (bHLH) domain are described that provide very accurate sequence signatures for the Myc-Max-Mad transcription factor network and three of its member proteins. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2005 journal article

Solving the protein sequence metric problem

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 102(18), 6395–6400.

By: W. Atchley n, J. Zhao n, A. Fernandes n & T. Druke n

author keywords: basic helix-loop-helix; molecular evolution; multivariate statistics; amino acid attributes; factor analysis
MeSH headings : Amino Acid Sequence / genetics; Analysis of Variance; Cluster Analysis; Codon / genetics; Computational Biology / methods; Discriminant Analysis; Genetic Variation; Models, Genetic; Multivariate Analysis; Phylogeny; Protein Conformation; Static Electricity; Statistics as Topic / methods
TL;DR: Multivariate statistical analyses on almost 500 amino acid attributes are used to produce a small set of highly interpretable numeric patterns of amino acid variability that reflect polarity, secondary structure, molecular volume, codon diversity, and electrostatic charge. (via Semantic Scholar)
UN Sustainable Development Goal Categories
10. Reduced Inequalities (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2003 journal article

Phylogenetic analysis of plant basic helix-loop-helix proteins

Journal of Molecular Evolution, 56(6), 742–750.

By: M. Buck n & W. Atchley n

MeSH headings : Amino Acid Sequence; Arabidopsis / genetics; Genome, Plant; Helix-Loop-Helix Motifs; Molecular Sequence Data; Multigene Family; Oryza / genetics; Phylogeny; Plant Proteins / chemistry; Plant Proteins / genetics; Transcription Factors / chemistry; Transcription Factors / genetics
TL;DR: It is suggested that plant bHLH proteins are under weaker selective constraints than their animal counterparts and that lineage specific expansions and subfunctionalization have fashioned regulatory proteins for plant specific functions. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Source: NC State University Libraries
Added: August 6, 2018

2002 journal article

Origin of the black shank resistance gene, Ph, in tobacco cultivar Coker 371-gold

PLANT DISEASE, 86(10), 1080–1084.

By: E. Johnson n, M. Wolff n, E. Wernsman n, W. Atchely & H. Shew n

author keywords: disease resistance genes; gene phylogeny
TL;DR: Testcross populations of hybrids between burley lines homozygous for Ph and L8, possessing Phl from N. longiflora, showed that Ph and Phl integrated into the same tobacco chromosome during interspecific transfer, and Random amplified polymorphic DNA (RAPD) analyses of the testcross progenies confirmed that recombination between the two loci was occurring. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2001 journal article

Phylogenetic analyses of amino acid variation in the serpin proteins

MOLECULAR BIOLOGY AND EVOLUTION, 18(8), 1502–1511.

By: W. Atchley n, T. Lokot, K. Wollenberg*, A. Dress & H. Ragg

author keywords: serpins; molecular evolution; phylogeny; protein evolution; maximum likelihood; neighbor joining
MeSH headings : Amino Acids / genetics; Animals; Databases, Factual; Evolution, Molecular; Exons; Genes / genetics; Genetic Variation; Humans; Introns; Phylogeny; Serpins / genetics
TL;DR: Phylogenetic analyses of 110 serpin protein sequences revealed clades consistent with independent phylogenetic analyses based on exon-intron structure and diagnostic amino acid sites that suggested that a neighbor-joining tree was more accurate than maximum-likelihood trees obtained using the quartet puzzling algorithm. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2001 journal article

Vertebrate serpins: Construction of a conflict-free phylogeny by combining exon-intron and diagnostic site analyses

MOLECULAR BIOLOGY AND EVOLUTION, 18(4), 577–584.

By: H. Ragg*, T. Lokot n, P. Kamp, W. Atchley n & A. Dress n

author keywords: molecular evolution; serpins; exon-intron structure; diagnostic sites; heparin cofactor II
MeSH headings : Amino Acid Sequence / genetics; Animals; Exons / genetics; Humans; Introns / genetics; Models, Statistical; Multigene Family; Phylogeny; Serine Proteinase Inhibitors / classification; Serine Proteinase Inhibitors / genetics; Serpins / classification; Serpins / genetics
TL;DR: A strong correlation between serpin gene families displaying a conserved exon-intron pattern and family-specific combinations of amino acid residues at specific sites suggests that present-day vertebrates encompass six ser pin gene families which evolved from primordial genes by massive intron insertion before or during early vertebrate radiation. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2000 journal article

Body weight and tail length divergence in mice selected for rate of development

JOURNAL OF EXPERIMENTAL ZOOLOGY, 288(2), 151–164.

By: B. Rhees n & W. Atchley n

TL;DR: Responsibility to selection for growth rate is characterized by analyzing age-specific mouse body weight and tail lengths and for growth curves using a logistics model and at least two distinct growth patterns are shown to result from selection. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2000 journal article

Cellular consequences in the brain and liver of age-specific selection for rate of development in mice

Genetics, 155(3), 1347–1357.

By: W. Atchley, R. Wei & P. Crenshaw

Source: NC State University Libraries
Added: August 6, 2018

2000 journal article

Characterization and differential expression of a human gene family of olfactomedin-related proteins

GENETICAL RESEARCH, 76(1), 41–50.

By: N. Kulkarni n, C. Karavanich n, W. Atchley n & R. Anholt  n

MeSH headings : Amino Acid Sequence; Animals; Blotting, Northern; Brain / metabolism; Cytoskeletal Proteins; Extracellular Matrix Proteins / biosynthesis; Extracellular Matrix Proteins / genetics; Eye Proteins / biosynthesis; Eye Proteins / genetics; Gene Expression; Glycoproteins / biosynthesis; Glycoproteins / genetics; Humans; Molecular Sequence Data; Multigene Family; Phylogeny; Rats; Sequence Homology, Amino Acid; Tissue Distribution
TL;DR: The link between TIGR/myocilin and ocular hypertension and the expression of several of these proteins in mucus-lined tissues suggest that they play an important role in regulating physical properties of the extracellular environment. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2000 journal article

Correlations among amino acid sites in bHLH protein domains: An information theoretic analysis

MOLECULAR BIOLOGY AND EVOLUTION, 17(1), 164–178.

By: W. Atchley n, K. Wollenberg*, W. Fitch, W. Terhalle & A. Dress

author keywords: mutual information; protein evolution; entropy; parametric bootstrap; helix-loop-helix
MeSH headings : Amino Acids / chemistry; Amino Acids / genetics; Animals; Evolution, Molecular; Helix-Loop-Helix Motifs / genetics; Humans; Models, Theoretical; Transcription Factors / chemistry; Transcription Factors / genetics
TL;DR: Results show that a significant amount of the observed covariation among amino acid sites is due to structural/functional constraints, over and above the covariation arising from phylogenetic constraints. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2000 journal article

Differential longevity in mouse stocks selected for early life growth trajectory

JOURNALS OF GERONTOLOGY SERIES A-BIOLOGICAL SCIENCES AND MEDICAL SCIENCES, 55(9), B455–B461.

By: R. Miller*, C. Chrisp* & W. Atchley n

MeSH headings : Adenocarcinoma / physiopathology; Adenoma / physiopathology; Aging / genetics; Aging / physiology; Animals; Body Constitution; Body Weight; Cause of Death; Female; Fibrosarcoma / physiopathology; Forecasting; Heart Failure / physiopathology; Longevity / genetics; Longevity / physiology; Lymphoma / physiopathology; Male; Mice; Mice, Inbred ICR / genetics; Mice, Inbred ICR / growth & development; Random Allocation; Regression Analysis; Weight Gain
TL;DR: The data provide support for the hypothesis that genetic factors that influence early life growth trajectories can have a strong influence on life span, and size-selected mice provide useful tools for analysis of the genetic Factors that influence life history parameters, including maturation and aging rates. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

2000 journal article

Effect of long-term selection for early postnatal growth rate on survival and prenatal development of transferred mouse embryos

Journal of Reproduction & Fertility, 118(1), 205–210.

By: C. Ernst, B. Rhees, C. Miao & W. Atchley

Source: NC State University Libraries
Added: August 6, 2018

2000 journal article

Molecular evolution of the GATA family of transcription factors: Conservation within the DNA-binding domain

JOURNAL OF MOLECULAR EVOLUTION, 50(2), 103–115.

By: J. Lowry n & W. Atchley n

author keywords: GATA; transcription factor; zinc finger; DNA binding domain; phylogeny; Boltzmann entropy; predictive motif
MeSH headings : Amino Acid Motifs; Amino Acid Sequence; Binding Sites; Conserved Sequence; DNA-Binding Proteins / physiology; Erythroid-Specific DNA-Binding Factors; Evolution, Molecular; Models, Molecular; Molecular Sequence Data; Phylogeny; Protein Structure, Tertiary; Transcription Factors / physiology; Zinc Fingers
TL;DR: It is shown that only the C-terminal zinc finger and basic domain, which together constitute the GATA-binding domain, are conserved throughout this protein family, and multiple modes of evolution are suggested, including gene duplication and modular evolution of GATA factors based upon inclusion of a class IV zinc finger motif. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

2000 journal article

Separation of phylogenetic and functional associations in biological sequences by using the parametric bootstrap

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 97(7), 3288–3291.

By: K. Wollenberg* & W. Atchley

UN Sustainable Development Goal Categories
10. Reduced Inequalities (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

1999 journal article

Effect of selection for development rate on reproductive onset in female mice

GENETICAL RESEARCH, 74(1), 55–64.

By: C. Ernst n, P. Crenshaw n & W. Atchley n

MeSH headings : Age Factors; Analysis of Variance; Animals; Female; Mice; Mice, Inbred ICR; Reproduction / genetics; Selection, Genetic; Sexual Maturation / genetics; Weight Gain / genetics
TL;DR: It is concluded that selection for growth rate has asymmetrically affected reproductive onset, with lines selected for suppressed gains experiencing delays in the reproductive onset traits measured. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

1999 journal article

Evolution of bHLH transcription factors: Modular evolution by domain shuffling?

MOLECULAR BIOLOGY AND EVOLUTION, 16(12), 1654–1663.

By: B. Morgenstern * & W. Atchley*

author keywords: modular evolution; molecular evolution; basic helix-loop-helix domain; transcription factors; sequence alignment; phylogeny
MeSH headings : DNA-Binding Proteins / genetics; Evolution, Molecular; Helix-Loop-Helix Motifs / genetics; Phylogeny; Protein Structure, Tertiary; Sequence Homology, Amino Acid; Transcription Factors / genetics
TL;DR: Drawing on several lines of evidence, it is suggested that modular evolution by domain shuffling may have played an important role in the evolution of this large group of transcriptional regulators. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

1999 journal article

Molecular evolution of helix-turn-helix proteins

JOURNAL OF MOLECULAR EVOLUTION, 49(3), 301–309.

By: J. Rosinski n & W. Atchley n

author keywords: helix-turn-helix; homology; phylogeny; transcription factors; sequence shuffling
MeSH headings : Amino Acid Sequence; Conserved Sequence; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / genetics; Evolution, Molecular; Helix-Turn-Helix Motifs; Molecular Sequence Data; Phylogeny; Protein Structure, Secondary; Sequence Alignment; Sequence Homology, Amino Acid; Transcription Factors / chemistry; Transcription Factors / genetics
TL;DR: All analyses point to a predominantly monophyletic origin for the helix–turn–helix domain, and the consequences of such an origin for a diverse group of proteins, and guidelines for the identification of future members of the HTH family are discussed. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

1999 journal article

Positional dependence, cliques, and predictive motifs in the bHLH protein domain

JOURNAL OF MOLECULAR EVOLUTION, 48(5), 501–516.

By: W. Atchley n, W. Terhalle* & A. Dress*

author keywords: basic helix-loop-helix proteins; bHLH; information theory; Boltzmann entropy; predictive motifs; positional dependence; cliques
MeSH headings : Amino Acid Sequence; Animals; Basic Helix-Loop-Helix Transcription Factors; Binding Sites / genetics; Conserved Sequence; DNA / metabolism; DNA-Binding Proteins / chemistry; DNA-Binding Proteins / genetics; DNA-Binding Proteins / metabolism; Evolution, Molecular; Helix-Loop-Helix Motifs / genetics; Humans; Molecular Sequence Data; Phylogeny; Sequence Homology, Amino Acid; Transcription Factors / chemistry; Transcription Factors / genetics; Transcription Factors / metabolism
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Source: Web Of Science
Added: August 6, 2018

1999 journal article

Uterine and postnatal maternal effects in mice selected for differential rate of early development

Genetics, 153(2), 905–917.

By: B. Rhees, C. Ernst, C. Miao & W. Atchley

Source: NC State University Libraries
Added: August 6, 2018

1998 journal article

Molecular evolution of the Myb family of transcription factors: Evidence for polyphyletic origin

JOURNAL OF MOLECULAR EVOLUTION, 46(1), 74–83.

By: J. Rosinski n & W. Atchley n

author keywords: Myb; evolution; phylogeny; transcription factors; oncogene
MeSH headings : Animal Population Groups / physiology; Animals; Binding Sites; Evolution, Molecular; Models, Biological; Phylogeny; Plant Physiological Phenomena; Protein Conformation; Proto-Oncogene Proteins; Proto-Oncogene Proteins c-myb; Repetitive Sequences, Nucleic Acid; Trans-Activators / chemistry; Trans-Activators / genetics; Transcription Factors / chemistry; Transcription Factors / physiology
TL;DR: Results imply a pattern of modular evolution of the Myb proteins centering on the possession of a helix-turn-helix motif, suggested to be a polyphyletic group related only by a ``Myb-box'' DNA-binding motif. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

1997 journal article

A natural classification of the basic helix-loop-helix class of transcription factors

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 94(10), 5172–5176.

By: W. Atchley n & W. Fitch n

MeSH headings : Amino Acid Sequence; Animals; Evolution, Molecular; Genetic Variation; Helix-Loop-Helix Motifs; Humans; Molecular Sequence Data; Phylogeny; Point Mutation; Sequence Homology, Amino Acid; Transcription Factors / chemistry; Transcription Factors / classification; Transcription Factors / genetics
TL;DR: A natural classification is provided for 242 basic helix-loop-helix (bHLH) motif-containing proteins and it is suggested that bHLH proteins containing a leucine zipper are not a natural, monophyletic group. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: August 6, 2018

1997 journal article

Altering developmental trajectories in mice by restricted index selection

Genetics, 146(2), 629–640.

By: W. Atchley, S. Xu & D. Cowley

Source: NC State University Libraries
Added: August 6, 2018

1997 journal article

Developmental quantitative genetics, conditional epigenetic variability and growth in mice

Genetics, 147(2), 765–776.

By: W. Atchley & J. Zhu

Source: NC State University Libraries
Added: August 6, 2018

1994 journal article

DEVELOPMENTAL QUANTITATIVE GENETIC MODELS OF EVOLUTIONARY CHANGE

DEVELOPMENTAL GENETICS, 15(1), 92–103.

By: W. Atchley n, S. Xu  n & C. Vogl  n

author keywords: DEVELOPMENTAL QUANTITATIVE GENETICS; DEVELOPMENT; EPIGENETIC; EVOLUTION; GENETIC MODELS; EFFECTS
MeSH headings : Animals; Biological Evolution; Growth / genetics; Models, Genetic; Multivariate Analysis
TL;DR: The algebraic equivalency of the Cowley and Atchley epigenetic model and Wagner's developmental mapping model is demonstrated, and a new multivariate model for continuous growth trajectories is proposed. (via Semantic Scholar)
UN Sustainable Development Goal Categories
13. Climate Action (Web of Science)
15. Life on Land (Web of Science)
Source: Web Of Science
Added: August 6, 2018

1993 journal article

Genetic affinities of inbred mouse strains of uncertain origin

Molecular Biology and Evolution, 10(6), 1150.

By: W. Atchley & W. Fitch

Source: NC State University Libraries
Added: August 6, 2018

1991 journal article

UTERINE EFFECTS, EPIGENETICS, AND POSTNATAL SKELETAL DEVELOPMENT IN THE MOUSE

EVOLUTION, 45(4), 891–909.

By: W. Atchley*, T. Logsdon, D. Cowley & E. Eisen

author keywords: BONE; EMBRYO TRANSFER; EPIGENETIC; MATERNAL EFFECTS; MATERNAL-FETAL INTERACTIONS; MOUSE; QUANTITATIVE GENETICS; SKELETAL DEVELOPMENT; UTERINE EFFECTS
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
13. Climate Action (Web of Science)
15. Life on Land (Web of Science)
Source: Web Of Science
Added: August 6, 2018

1989 journal article

A QUANTITATIVE-GENETICS PERSPECTIVE ON MAMMALIAN DEVELOPMENT

AMERICAN NATURALIST, 134(3), 486–512.

By: W. Atchley* & S. Newman

TL;DR: These discussions are intended to describe some important aspects of evolutionary change in complex traits from a developmental quantitative-genetics perspective and support the contention that information about the complexity of the trait, the dynamics of the underlying controlling factors, and an age-specific response to selection must be incorporated into discussions of evolutionarychange by selection. (via Semantic Scholar)
UN Sustainable Development Goal Categories
13. Climate Action (Web of Science)
15. Life on Land (Web of Science)
Source: Web Of Science
Added: August 6, 2018

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