NNcon: Protein Contact Map Prediction Using Artificial Neural Networks (Help)

Email address(where the prediction will be sent):

Target Name(required):


Protein sequence(one plain sequence, no headers, and length < 1000 amino acids; an example sequence is here):



NNcon was ranked among the best residue-residue contact methods in the Eight Critical Assessment of Techniques for Protein Structure Prediction (CASP8).

Download NNcon 1.0 (Linux version)
You can download the complete package: NNcon1.0 (684MB), or download it in parts: the big databases (155MB), the nr databases (479MB), and the executable scripts (48MB). ATTENTION: all these three parts need to be placed at the same folder in order to successfully run NNcon local version.


Reference:

1. Allison N. Tegge, Zheng Wang, Jesse Eickholt, and Jianlin Cheng. NNcon: Improved Protein Contact Map Prediction Using 2D-Recursive Neural Networks. Nucleic Acids Research, May, 2009. [PDF]

2. J. Cheng and P. Baldi. Three-Stage Prediction of Protein Beta-Sheets by Neural Networks, Alignments, and Graph Algorithms. Proceedings of the 2005 Conference on Intelligent Systems for Molecular Biology (ISMB 2005). Bioinformatics, vol. 21(Suppl 1), pp. i75-84, 2005.

3. J. Cheng, A. Randall, M. Sweredoski, and P. Baldi, SCRATCH: a Protein Structure and Structural Feature Prediction Server. Nucleic Acids Research, vol. 33 (web server issue), w72-76, 2005.

Dr. Jianlin Cheng
Computer Science Department
University of Missouri, Columbia