Large-Scale Analyses of Site-Specific Evolutionary Rates across Eukaryote Proteomes Reveal Confounding Interactions between Intrinsic Disorder, Secondary Structure, and Functional Domains

Human long intrinsically disordered protein regions are frequent targets of positive selection

(2018) Arina Afanasyeva et al.   GENOME RESEARCH

Relative Evolutionary Rates in Proteins Are Largely Insensitive to the Substitution Model

(2018) Stephanie J Spielman et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Nuanced Interplay of Intrinsic Disorder and Other Structural Properties Driving Protein Evolution

(2016) Joseph Ahrens et al.   MOLECULAR BIOLOGY AND EVOLUTION

Molecular recognition features (MoRFs) in three domains of life

(2016) Jing Yan et al.   Molecular BioSystems

Causes of evolutionary rate variation among protein sites

(2016) Julian Echave et al.   NATURE REVIEWS GENETICS

UniProt: the universal protein knowledgebase

(2016)   NUCLEIC ACIDS RESEARCH

Disordered nucleiome: Abundance of intrinsic disorder in the DNA- and RNA-binding proteins in 1121 species from Eukaryota, Bacteria and Archaea

(2016) Chen Wang et al.   PROTEOMICS

Determinants of the rate of protein sequence evolution

(2015) Jianzhi Zhang et al.   NATURE REVIEWS GENETICS

JPred4: a protein secondary structure prediction server

(2015) Alexey Drozdetskiy et al.   NUCLEIC ACIDS RESEARCH

Insights into the Immunological Properties of Intrinsically Disordered Malaria Proteins Using Proteome Scale Predictions

(2015) Andrew J. Guy et al.   PLoS One

Functional Advantages of Conserved Intrinsic Disorder in RNA-Binding Proteins

(2015) Mihaly Varadi et al.   PLoS One

Intrinsic disorder within the erythrocyte binding-like proteins from Plasmodium falciparum

(2014) Manuel Blanc et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Local Packing Density Is the Main Structural Determinant of the Rate of Protein Sequence Evolution at Site Level

(2014) So-Wei Yeh et al.   Biomed Research International

Analysis and consensus of currently available intrinsic protein disorder annotation sources in the MobiDB database

(2013) Tomás Di Domenico et al.   BMC BIOINFORMATICS

Site-Specific Structural Constraints on Protein Sequence Evolutionary Divergence: Local Packing Density versus Solvent Exposure

(2013) So-Wei Yeh et al.   MOLECULAR BIOLOGY AND EVOLUTION

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Orderly order in protein intrinsic disorder distribution: disorder in 3500 proteomes from viruses and the three domains of life

(2012) Bin Xue et al.   JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS

Structural Disorder in Eukaryotes

(2012) Rita Pancsa et al.   PLoS One

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Roles of intrinsic disorder in protein–nucleic acid interactions

(2011) H. Jane Dyson   Molecular BioSystems

IDEAL: Intrinsically Disordered proteins with Extensive Annotations and Literature

(2011) S. Fukuchi et al.   NUCLEIC ACIDS RESEARCH

Bringing order to protein disorder through comparative genomics and genetic interactions

(2011) Jeremy Bellay et al.   GENOME BIOLOGY

The Evolution of Protein Structures and Structural Ensembles Under Functional Constraint

(2011) Jessica Siltberg-Liberles et al.   Genes

Protein annotation and modelling servers at University College London

(2010) D. W. A. Buchan et al.   NUCLEIC ACIDS RESEARCH

CDF it all: Consensus prediction of intrinsically disordered proteins based on various cumulative distribution functions

(2009) Bin Xue et al.   FEBS LETTERS

Structural Determinants of Protein Evolution Are Context-Sensitive at the Residue Level

(2009) E. A. Franzosa et al.   MOLECULAR BIOLOGY AND EVOLUTION

PANTHER version 7: improved phylogenetic trees, orthologs and collaboration with the Gene Ontology Consortium

(2009) Huaiyu Mi et al.   NUCLEIC ACIDS RESEARCH

Intrinsic Disorder in Protein Interactions: Insights From a Comprehensive Structural Analysis

(2009) Jessica H. Fong et al.   PLoS Computational Biology

Intrinsic disorder in pathogenic and non-pathogenic microbes: discovering and analyzing the unfoldomes of early-branching eukaryotes

(2008) Amrita Mohan et al.   Molecular BioSystems

Database resources of the National Center for Biotechnology Information

(2008) E. W. Sayers et al.   NUCLEIC ACIDS RESEARCH

GenBank

(2008) D. A. Benson et al.   NUCLEIC ACIDS RESEARCH