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A

A General Empirical Model of Protein Evolution Derived from Multiple Protein Families Using a Maximum-Likelihood Approach +S. Whelan  +, N. Goldman  +
A Model of Evolutionary Change in Proteins +M. Dayhoff  +
Amino acid substitution matrices from an information theoretic perspective +Stephen F. Altschul  +
Amino acid substitution matrices from protein blocks +S. Henikoff  +, J. G. Henikoff  +

D

Different Versions of the Dayhoff Rate Matrix +C. Kosiol  +, N. Goldman  +

E

Evolutionary Rate Heterogeneity in Proteins with Long Disordered Regions +C. J. Brown  +, S. Takayama  +, A. M. Campen  +,

F

Flavors of Protein Disorder +S. Vucetic  +, C. J. Brown  +, A. K. Dunker  +,

I

Intrinsic Protein Disorder in Complete Genomes +A. K. Dunker  +, P. Romero  +, Z. Obradovic  +,
Intrinsic disorder and functional proteomics +P. Radivojac  +, L. M. Iakoucheva  +, C. J. Oldfield  +,
Intrinsically Unstructured Proteins: Re-assessing the Protein Structure-Function Paradigm +P. E. Wright  +, H. J. Dyson  +
Intrinsically disordered protein (JMolGraphMod) +A. K. Dunker  +, J. D. Lawson  +, C. J. Brown  +,
Intrinsically unstructured proteins +P. Tompa  +
Intrinsically unstructured proteins evolve by repeat expansion +P. Tompa  +

P

Predicting Binding Regions within Disordered Proteins +E. C. Garner  +, P. Romero  +, A. K. Dunker  +,
Proportion of Solvent-Exposed Amino Acids in a Protein and Rate of Protein Evolution +Y. S. Lin  +, W. L. Hsu  +, J. K. Hwang  +,
Protein Evolution with Dependence Among Codons Due to Tertiary Structure +D. M. Robinson  +, D. T. Jones  +, H. Kishino  +,
Protein database searches using compositionally adjusted substitution matrices +Stephen F. Altschul  +, John C. Wootton  +, E. Michael Gertz  +,

S

Sequence Complexity of Disordered Protein +P. Romero  +, Z. Obradovic  +, X. Li  +,

T

The protein non-folding problem: amino acid determinants of intrinsic order and disorder +R. M. Williams  +, Z. Obradovic  +, V. Mathura  +,
The rapid generation of mutation data matrices from protein sequences +D. T. Jones  +, W. R. Taylor  +, J. M. Thornton  +
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