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Publications of Author

1. Ian Holmes, William J. Bruno
   Finding Regulatory Elements Using Joint Likelihoods for Sequence and Expression Profile Data. [Citation Graph (0, 0)][DBLP]
   ISMB, 2000, pp:202-210 [Conf]
   
2. Ian Holmes, Gerald M. Rubin
   Pairwise RNA Structure Comparison with Stochastic Context-Free Grammars. [Citation Graph (0, 0)][DBLP]
   Pacific Symposium on Biocomputing, 2002, pp:163-174 [Conf]
   
3. Ian Holmes, Richard Durbin
   Dynamic programming alignment accuracy. [Citation Graph (0, 0)][DBLP]
   RECOMB, 1998, pp:102-108 [Conf]
   
4. Ian Holmes
   Using evolutionary Expectation Maximization to estimate indel rates. [Citation Graph (0, 0)][DBLP]
   Bioinformatics, 2005, v:21, n:10, pp:2294-2300 [Journal]
   
5. Ian Holmes, William J. Bruno
   Evolutionary HMMs: a Bayesian approach to multiple alignment. [Citation Graph (0, 0)][DBLP]
   Bioinformatics, 2001, v:17, n:9, pp:803-820 [Journal]
   
6. Ian Holmes
   A probabilistic model for the evolution of RNA structure. [Citation Graph (0, 0)][DBLP]
   BMC Bioinformatics, 2004, v:5, n:, pp:166- [Journal]
   
7. Ian Holmes
   Accelerated probabilistic inference of RNA structure evolution. [Citation Graph (0, 0)][DBLP]
   BMC Bioinformatics, 2005, v:6, n:, pp:73- [Journal]
   
8. Ian Holmes, Richard Durbin
   Dynamic Programming Alignment Accuracy. [Citation Graph (0, 0)][DBLP]
   Journal of Computational Biology, 1998, v:5, n:3, pp:493-504 [Journal]
   
9. 
   Transducers: an emerging probabilistic framework for modeling indels on trees. [Citation Graph (, )][DBLP]
   
   
10. 
    Phylocomposer and phylodirector: analysis and visualization of transducer indel models. [Citation Graph (, )][DBLP]
    
    
11. 
    Colorstock, SScolor, Ratón: RNA alignment visualization tools. [Citation Graph (, )][DBLP]
    
    
12. 
    Specific alignment of structured RNA: stochastic grammars and sequence annealing. [Citation Graph (, )][DBLP]
    
    
13. 
    XRate: a fast prototyping, training and annotation tool for phylo-grammars. [Citation Graph (, )][DBLP]