Tandem and cryptic amino acid repeats accumulate in disordered regions of proteins
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[1] P. Romero,et al. Sequence complexity of disordered protein , 2001, Proteins.
[2] M. Campbell,et al. PANTHER: a library of protein families and subfamilies indexed by function. , 2003, Genome research.
[3] S. Lovell. Are non‐functional, unfolded proteins (‘junk proteins’) common in the genome? , 2003, FEBS letters.
[4] Nobuaki Yoshida,et al. Morphological change caused by loss of the taxon-specific polyalanine tract in Hoxd-13. , 2006, Molecular biology and evolution.
[5] D. Tautz,et al. Cryptic simplicity in DNA is a major source of genetic variation , 1986, Nature.
[6] William R. Taylor,et al. The rapid generation of mutation data matrices from protein sequences , 1992, Comput. Appl. Biosci..
[7] C. Lobe,et al. Products of the grg (Groucho-related Gene) Family Can Dimerize through the Amino-terminal Q Domain* , 1996, The Journal of Biological Chemistry.
[8] S. Karlin,et al. Amino acid runs in eukaryotic proteomes and disease associations , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[9] J. Whisstock,et al. Functional insights from the distribution and role of homopeptide repeat-containing proteins. , 2005, Genome research.
[10] R. Guigó,et al. Comparative analysis of amino acid repeats in rodents and humans. , 2004, Genome research.
[11] Maria Jesus Martin,et al. The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003 , 2003, Nucleic Acids Res..
[12] S. Mundlos,et al. The other trinucleotide repeat: polyalanine expansion disorders. , 2005, Current opinion in genetics & development.
[13] Rainer B. Lanz,et al. A transcriptional repressor obtained by alternative translation of a trinucleotide repeat , 1995, Nucleic Acids Res..
[14] Andreas Prlic,et al. Ensembl 2007 , 2006, Nucleic Acids Res..
[15] Zheng Rong Yang,et al. RONN: the bio-basis function neural network technique applied to the detection of natively disordered regions in proteins , 2005, Bioinform..
[16] J. Hancock,et al. Evolution of sequence repetition and gene duplications in the TATA-binding protein TBP (TFIID). , 1993, Nucleic acids research.
[17] David B. Goldstein,et al. Microsatellites: Evolution and Applications , 1999 .
[18] S. Artavanis-Tsakonas,et al. opa: A novel family of transcribed repeats shared by the Notch locus and other developmentally regulated loci in D. melanogaster , 1985, Cell.
[19] A. Dunker,et al. Disorder and sequence repeats in hub proteins and their implications for network evolution. , 2006, Journal of proteome research.
[20] A Keith Dunker,et al. Intrinsic disorder and protein function. , 2002, Biochemistry.
[21] T JonesDavid,et al. The DISOPRED server for the prediction of protein disorder , 2004 .
[22] Melanie A. Huntley,et al. Evolutionary analysis of amino acid repeats across the genomes of 12 Drosophila species. , 2007, Molecular biology and evolution.
[23] Bernard F. Buxton,et al. The DISOPRED server for the prediction of protein disorder , 2004, Bioinform..
[24] P. Tompa. Intrinsically unstructured proteins evolve by repeat expansion , 2003, BioEssays : news and reviews in molecular, cellular and developmental biology.
[25] Zsuzsanna Dosztányi,et al. IUPred: web server for the prediction of intrinsically unstructured regions of proteins based on estimated energy content , 2005, Bioinform..
[26] B. Dujon,et al. Trinucleotide repeats in yeast. , 1997, Research in microbiology.
[27] Joaquín Dopazo,et al. The role of the environment in Parkinson's disease. , 1996, Nucleic Acids Res..
[28] H Green,et al. Codon reiteration and the evolution of proteins. , 1994, Proceedings of the National Academy of Sciences of the United States of America.
[29] John M. Hancock,et al. Detecting cryptically simple protein sequences using the SIMPLE algorithm , 2002, Bioinform..
[30] John M. Hancock,et al. Simple sequence repeats in proteins and their significance for network evolution. , 2005, Gene.
[31] D. T. Jones,et al. Sequence patterns associated with disordered regions in proteins , 2004, Proteins.
[32] Marc S. Cortese,et al. Comparing and combining predictors of mostly disordered proteins. , 2005, Biochemistry.
[33] L Pinsky,et al. Evidence for a repressive function of the long polyglutamine tract in the human androgen receptor: possible pathogenetic relevance for the (CAG)n-expanded neuronopathies. , 1995, Human molecular genetics.
[34] Susan L. Epstein,et al. Comparative Genomics Reveals Long, Evolutionarily Conserved, Low-Complexity Islands in Yeast Proteins , 2006, Journal of Molecular Evolution.
[35] C. Schwechheimer,et al. The activities of acidic and glutamine-rich transcriptional activation domains in plant cells: design of modular transcription factors for high-level expression , 2004, Plant Molecular Biology.
[36] S Karlin,et al. Trinucleotide repeats and long homopeptides in genes and proteins associated with nervous system disease and development. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[37] John M. Hancock,et al. How slippage-derived sequences are incorporated into rRNA variable-region secondary structure: implications for phylogeny reconstruction. , 2000, Molecular phylogenetics and evolution.
[38] John M. Hancock. The contribution of slippage-like processes to genome evolution , 1995, Journal of Molecular Evolution.
[39] Geoffrey I. Webb,et al. RCPdb: An evolutionary classification and codon usage database for repeat-containing proteins. , 2007, Genome research.
[40] H. Garner,et al. Molecular origins of rapid and continuous morphological evolution , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[41] John M. Hancock,et al. Amino Acid Reiterations in Yeast Are Overrepresented in Particular Classes of Proteins and Show Evidence of a Slippage-Like Mutational Process , 1999, Journal of Molecular Evolution.
[42] Colin N. Dewey,et al. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution , 2004, Nature.
[43] David T. Jones,et al. Prediction of disordered regions in proteins from position specific score matrices , 2003, Proteins.
[44] John M. Hancock,et al. Codon repeats in genes associated with human diseases: fewer repeats in the genes of nonhuman primates and nucleotide substitutions concentrated at the sites of reiteration. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[45] David P. Kreil,et al. Asparagine repeats are rare in mammalian proteins. , 2000, Trends in biochemical sciences.
[46] Torsten Schwede,et al. Assessment of disorder predictions in CASP7 , 2007, Proteins.
[47] V. Uversky. Intrinsically Disordered Proteins , 2000 .
[48] H. Dyson,et al. Intrinsically unstructured proteins: re-assessing the protein structure-function paradigm. , 1999, Journal of molecular biology.
[49] A Keith Dunker,et al. Conservation of intrinsic disorder in protein domains and families: II. functions of conserved disorder. , 2006, Journal of proteome research.
[50] J. Thompson,et al. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. , 1994, Nucleic acids research.
[51] E. Marcotte,et al. A fast algorithm for genome‐wide analysis of proteins with repeated sequences , 1999, Proteins.
[52] John M. Hancock,et al. A role for selection in regulating the evolutionary emergence of disease-causing and other coding CAG repeats in humans and mice. , 2001, Molecular biology and evolution.
[53] E. Young,et al. Trinucleotide repeats are clustered in regulatory genes in Saccharomyces cerevisiae. , 2000, Genetics.
[54] Manish S. Shah,et al. A novel gene containing a trinucleotide repeat that is expanded and unstable on Huntington's disease chromosomes , 1993, Cell.
[55] John M. Hancock. Genome size and the accumulation of simple sequence repeats: implications of new data from genome sequencing projects , 2002, Genetica.
[56] John M. Hancock,et al. Dictionary of bioinformatics and computational biology , 2004, Choice Reviews Online.
[57] Christopher J. Oldfield,et al. Evolutionary Rate Heterogeneity in Proteins with Long Disordered Regions , 2002, Journal of Molecular Evolution.
[58] C. Brown,et al. Intrinsic protein disorder in complete genomes. , 2000, Genome informatics. Workshop on Genome Informatics.
[59] Christian Schlötterer,et al. Two distinct modes of microsatellite mutation processes: evidence from the complete genomic sequences of nine species. , 2003, Genome research.
[60] S. Brunak,et al. Locating proteins in the cell using TargetP, SignalP and related tools , 2007, Nature Protocols.
[61] L. Mularoni,et al. Highly constrained proteins contain an unexpectedly large number of amino acid tandem repeats. , 2007, Genomics.
[62] John M. Hancock,et al. Conservation of polyglutamine tract size between mice and humans depends on codon interruption. , 1999, Molecular biology and evolution.
[63] C. Chothia,et al. Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure. , 2001, Journal of molecular biology.
[64] Rolf Apweiler,et al. InterProScan: protein domains identifier , 2005, Nucleic Acids Res..
[65] M. Pagel,et al. Origin of avian genome size and structure in non-avian dinosaurs , 2007, Nature.
[66] J. Cáceres,et al. The SR protein family of splicing factors: master regulators of gene expression. , 2009, The Biochemical journal.
[67] Jessica W. Chen. Conversation of Intrinsic Disorder in Protein Domains and Families , 2005 .
[68] John M. Hancock,et al. The Comparative Genomics of Polyglutamine Repeats: Extreme Difference in the Codon Organization of Repeat-Encoding Regions Between Mammals and Drosophila , 2001, Journal of Molecular Evolution.
[69] Robert D. Finn,et al. New developments in the InterPro database , 2007, Nucleic Acids Res..
[70] John C. Wootton,et al. Non-globular Domains in Protein Sequences: Automated Segmentation Using Complexity Measures , 1994, Comput. Chem..
[71] Christopher J. Oldfield,et al. Intrinsically disordered protein. , 2001, Journal of molecular graphics & modelling.