Old and scattered links related to simple sequence repeats

• Simple Sequence Repeats in Eukaryotic Genome Sequences
  Katti MV, Ranjekar PK, Gupta VS (2001) Differential distribution of simple sequence repeats in eukaryotic genome sesquences.  Molecular Biology and Evolution 18: 1161-1167.
   
• Tandem Repeats In Protein Sequences
  Katti MV, Sami-Subbu R, Ranjekar PK, Gupta VS (2000) Amino acid repeat patterns in protein sequences: Their diversity and structural-functional implications.   Protein Science 9: 1203-1209.
   
• TRbase: a database relating tandem repeats to disease genes in the human genome.
  Boby, T., Patch, A.M., Aves, S.J. (2005) TRbase: a database relating tandem repeats to disease genes in the human genome. Bioinformatics 21:811-816.
   
• Subbaya Subramanian, Vamsi M. Madgula, Ranjan George, Rakesh K. Mishra, Madhusudhan W. Pandit, Chanderashekar S. Kumar, and Lalji Singh (2003)  Triplet repeats in human genome: distribution and their association with genes and other genomic regions.  Bioinformatics 19: 549-552.  [abstract]
  • Microsatellite Repeats Database   Also by Subramanian et al.  Software for SSR analysis
     
• mreps.  Software for identifying tandem repeats. 
  R. Kolpakov, G. Bana, and G. Kucherov,  mreps: efficient and flexible detection of tandem repeats in DNA sequences, Nucleic Acid Research, 31 (13): 3672-3678 (2003).
   
• ATRHunter finds and displays approximate tandem repeats in DNA sequences.
  Ydo Wexler, Zohar Yakhini, Yechezkel Kashi and Dan Geiger.  "Finding Approximate Tandem Repeats in Genomic Sequences." (Recomb 2004)
   
• Tandem Repeats Data Base
  G. Benson.  Tandem repeats finder: a program to analyze DNA sequences.  Nucleic Acids Research Vol. 27, 573-580 (1999).
  Gelfand Y, Rodriguez A, Benson G.  TRDB - The Tandem Repeats Database.  Nucleic Acids Research Vol. 35: D80-D87 (2007).
• Tandem Repeats Finder:  http://tandem.bu.edu/trf/trf.html
   
• Anthony Hannan, Neural Plasticity Lab, University of Melbourne
• Melanie Huntley (protein repeats)
• Y. Kashi, and D.G. King (2006)  Simple Sequence Repeats as Advantageous Mutators in Evolution.  Trends in Genetics 22:253-259.  [Abstract]
• King, D.G., E.N. Trifonov, and Y. Kashi  (2006)  Tuning Knobs in the Genome:  Evolution of Simple Sequence Repeats by Indirect Selection.  In: Lynn H. Caporale, ed., The Implicit Genome, Oxford University Press.  [Abstract]  
• Rodent Social Behavior Encoded in Junk DNA (2005 NIH press release, Larry Young lab)
• John W. Fondon III and Harold R. Garner (2004) Molecular origins of rapid and continuous morphological evolution.  PNAS 101(52): 18058-18063.
  [news release from Univ. Texas]
• Lynn Helena Caporale  (2003)  Foresight in Genome Evolution, American Scientist 91(3): 234-241.
• Lynn Helena Caporale  (2002)  Darwin in the Genome, McGraw-Hill.
• King, D.G.  (2000)  Indirect selection on the mutational landscape: An evolved role for the mutability of repetitive DNA?  In: Evolution 2000, (ed. M.J. Wade), Indiana University Conferences, Bloomington, Indiana [PDF file].
• King, D.G., and M. Soller (1999)  Variation and fidelity:  The evolution of simple sequence repeats as functional elements in adjustable genes.  In:  S.P. Wasser, ed., Evolutionary Theory and Processes: Modern Perspectives, pp. 65-82.  Kluwer Academic Publishers, Dordrecht, The Netherlands.  [Abstract]  
• King, D.G. (1999)  Modelling selection for adjustable genes based on simple sequence repeats.  In: Molecular Strategies in Biological Evolution, Annals of the New York Academy of Science 870:396-399.  [Abstract]
• E.R. Moxon and C. Wills  (1999)  DNA Microsatellites: Agents of Evolution, Scientific American 280(1): 94-99.
• Pennisi, E.  (1998)  How the Genome Readies Itself for Evolution, Science 281:1131-1134.
• King, D.G., M. Soller, and Y. Kashi  (1997)  Evolutionary Tuning Knobs, Endeavour 21(1):36-40.   [PDF file]
• Kashi, Y., D. G. King, and M. Soller (1997)  Simple sequence repeats as a source of quantitative genetic variation.  Trends in Genetics 13:74-78.  [Abstract]  [PDF text]
  

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