1. Secondary phenotypes
for case-control genetic association studies: download the
Fortran code here.
Xing, C., Dupuis, J., Cupples, L. A. Meigs, J. B., Lin, X., and Allen,
A. S. Inverse-probability weighted estimating equations for analyzing
secondary phenotypes in case-control genetic association studies.
Bayes Ensemble Learning (NBEL) algorithm for predicting protein-protein
interactions: download the
MATLAB code here to implement the NBEL algorithm.
Xing, C. and Dunson, D. B. Bayesian inference for genomic data integration
reduces misclassification rate in predicting protein-protein interactions.
PLoS Comput Biol. 2011; 7(7):e1002110. PMID: 21829334.
3. Free Energy
package to calculate the free energy between a short sequence and a
DNA sequence by finding the optimal secondary structure between them:
- Xing, C.*,
Bitzer, D. L., and Alexander, W. E., Vouk, M. A., and Stomp A-M. Identification
of protein-coding sequences using the hybridization of 18S rRNA and
mRNA during translation. Nucleic Acids Res. 2009; 37(2):591-601.
- Xing, C., Bitzer
D. L., Alexander, W. E., Stomp, A. M., Vouk, M. A. Free energy analysis
on the coding region of the individual genes of Saccharomyces cerevisiae.
Conf Proc IEEE Eng Med Biol Soc. 2006; 4225-4228.
- Xing, C., Mishra,
M., Vu, S. K., Alexander, W. E., Bitzer, D. L., and Vouk, M. A. Free
energy based analysis of the coding region of Saccharomyces cerevisiae.
Technology for Life: North Carolina Symposium on Biotechnology and
Bioinformatics. 2004; 25-27.