Protein secondary structure prediction using dynamic programming

Acta Biochimica et Biophysica Sinica

Volumn 37, Issue 3, 2005, Pages 167-172

  Zhao, Jing ^a,b,c   Song, Pei Ming ^a   Fang, Qing ^a   Luo, Jian Hua ^a,b  

^a SHANGHAI JIAO TONG UNIVERSITY   (China)

^b SHANGHAI CENTER FOR BIOINFORMATION TECHNOLOGY   (China)

^c Logistical Engineering University of PLA   (China)

Author keywords

Directed graph; Dynamic programming approach; Protein secondary structure

Indexed keywords

PEPTIDE; PROTEIN;

ACCURACY; ANALYTIC METHOD; ARTICLE; ARTIFICIAL NEURAL NETWORK; DYNAMICS; MATHEMATICAL COMPUTING; PEPTIDE ANALYSIS; PREDICTION; PROTEIN ANALYSIS; PROTEIN DATABASE; PROTEIN SECONDARY STRUCTURE; SEQUENCE HOMOLOGY; STRUCTURE ANALYSIS;

EID: 19344378239     PISSN: 05829879     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1745-7270.2005.00022.x     Document Type: Article

References (11)

1. Garnier J, Osguthorpe DJ, Robson B. Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins. J Mol Biol, 1978, 120: 97-120
2. Gibrat JF, Robson B, Garnier J. Further developments of protein secondary structure prediction using information theory: New parameters and consideration of residue pairs. J Mol Biol, 1987, 198(3): 425-443
3. Garnier J, Gibrat JF, Robson B. GOR method for predicting protein secondary structure from amino acid sequence. Methods Enzymol, 1996, 266: 540-553
4. King RD, Sternberg MJE. Identification and application of the concepts important for accurate and reliable protein secondary structure prediction. Protein Sci, 1996, 65(11): 2298-2310
5. Zvelebil MJ, Barton GJ, Taylor WR, Sternberg MJE. Prediction of protein secondary structure and active site using the alignment of homologous sequences. J Mol Biol, 1987, 195(4): 957-967
6. Frishman D, Argos P. Incorporation of non-local interactions in protein secondary structure prediction from the amino acid sequence. Protein Eng, 1996, 9(2): 133-142
7. Frishman D, Argos P. Seventy-five percent accuracy in protein secondary structure prediction. Proteins, 1997, 27(3): 329-335
8. Yi TM, Lander S. Protein secondary structure prediction using nearest-neighbor methods. J Mol Biol, 1993, 232(4): 1117-1129
9. Salamov AA, Solovyev VV. Prediction of protein secondary structure by combining nearest-neighbor algorithms and multiple sequence alignment. J Mol Biol, 1995, 247(1): 11-15
10. Rost B, Sander C. Prediction of protein secondary structure at better than 70% accuracy. J Mol Biol, 1993, 232(2): 584-599
11. Ward JJ, McGuffin LJ, Buxton BF, Jones DT. Secondary structure prediction with support vector machines. Bioinformatics, 2003, 19(13): 1650-1655