Protein motif searching through similar enriched parikh vector identification

Proceedings - BIBE 2005: 5th IEEE Symposium on Bioinformatics and Bioengineering

Volumn 2005, Issue , 2005, Pages 285-289

  Huang, Xiaolu ^a   Ali, Hesham ^a   Sadanandam, Anguraj ^b   Singh, Rakesh ^b  

^a UNIVERSITY OF NEBRASKA AT OMAHA   (United States)

^b UNIVERSITY OF NEBRASKA MEDICAL CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

INTRA-SEQUENCE; OPTIMAL PATH PROCESSES; PROTEIN ANALYSIS;

ALGORITHMS; BIOMEDICAL ENGINEERING; INFORMATION RETRIEVAL; VECTORS;

PROTEINS;

EID: 33751175173     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/BIBE.2005.49     Document Type: Conference Paper

References (13)

1. W. Arap et al., "Steps toward mapping the human vasculature by phage display", Nature Medicine 8 (2), 2002, pp. 121-127.
2. J. M. Claverie and H. Ogata, "The insertion of palindromic repeats in the evolution of proteins", Trends. Biochem. Sci., 28(2), 2003, pp. 75-80.
3. D. S. Dwyer, "Assembly of exons from unitary transposable genetic elements: implications for the evolution of protein-protein interactions", J Theor. Biol., 194, 1998, pp. 11-27.
4. th International Conference on Computer Applications in Industry and Engineering, 2004.
5. T. F. Smith, M. S. Waterman, "Identification of common molecular subsequences", J. Mol. Biol., 147(1), 1981, pp: 195-197.
6. S. B. Needleman, C. D. Wunsch. "A general method applicable to the search for similarities in the amino acid sequence of two proteins", J Mol Biol., 48(3), 1970. pp. 443-453.
7. S. Altschul, et al., "Gapped BLAST AND PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res., 25 (1), 1997, pp. 3389-3402.
8. H. Viklund, A, Elofsson, "Best alpha-helical transmembrane protein topology predictions are achieved using hidden Markov models and evolutionary information", Protein Sci., 13(7), 2004, pp. 1908-1917.
9. R. Szklarczyk and J. Heringa "Tracking repeats using significance and transitivity", Bioinformatics, 20 (Suppl. 1), 2004, pp. 311-317.
10. M. Waterman, M. Eggert, "A new algorithm for best subsequence alignments with application to tRNA-rRNA comparisons", J. Mol. Biol., 197 (4), 1987, pp. 723-728.
11. R. J. Parikh, "On Context-Free Languages", JACM, 13 (4), 1966, pp. 570-581.
12. Uniprot retrieved on 10/5/2004 from ftp.ebi.ac.uk/pub/databases/uniprot/ knowledgebase/.
13. A. G. Murzin, S. E. Brenner, T. Hubbard, and C. Chothia, "SCOP: a structural classification of proteins database for the investigation of sequences and structures", J. Mol. Biol. 247, 1995, pp. 536-540.