You can present an article from this list, or you can choose one from the literature. You must choose a primary research article, not a review, and please send the article to me so that I can approve it.

Probablity/statistics:
A model of the statistical power of comparative genome sequence analysis. Eddy SR. PLoS Biol. 2005 PubMed
Finding motifs in the twilight zone. Keich U, Pevzner PA. Bioinformatics. 2002 PubMed
Reconsidering the significance of genomic word frequencies. Csuros M, Noe L, Kucherov Trends Gene 2007 PubMed
Sequence alignment:
A statistical score for assessing the quality of multiple sequence alignments. Ahola V, Aittokallio T, Vihinen M, Uusipaikka E. BMC Bioinformatics. 2006 PubMed
A probabilistic model of local sequence alignment that simplifies statistical significance estimation. Eddy SR. PLoS Comput Biol. 2008 PubMed
A greedy algorithm for aligning DNA sequences. Zhang Z, Schwartz S, Wagner L, Miller W. J Comput Biol. 2000 PubMed
Phylogeny-aware gap placement prevents errors in sequence alignment and evolutionary analysis. Loytynoja A, Goldman N. Science. 2008 PubMed
CBESW: sequence alignment on the Playstation 3. Wirawan A, Kwoh CK, Hieu NT, Schmidt B. BMC Bioinformatics. 2008 PubMed
Hidden Markov Models:
Detecting species-site dependencies in large multiple sequence alignments. Schwarz R, Seibel PN, Rahmann S, Schoen C, Huenerberg M, Muller-Reible C, Dandekar T, Karchin R, Schultz J, Muller T Nucleic Acids Res. 2009 PubMed
Modeling promoter grammars with evolving hidden Markov models. Won KJ, Sandelin A, Marstrand TT, Krogh A. Bioinformatics. 2008 PubMed
A Bayesian approach to DNA sequence segmentation. Boys RJ, Henderson DA. Biometrics. 2004 PubMed
Phylogeny/evolution:
Vertebrate conserved non coding DNA regions have a high persistence length and a short persistence time. Retelska D, Beaudoing E, Notredame C, Jongeneel CV, Bucher P. BMC Genomics. 2007 PubMed
A fungal phylogeny based on 82 complete genomes using the composition vector method. Wang H, Xu Z, Gao L, Hao B. BMC Evol Biol. 2009 PubMed
High throughput sequencing techniques:
BayesCall: A model-based base-calling algorithm for high-throughput short-read sequencing. Kao WC, Stevens K, Song YS. Genome Res. 2009 PubMed
De novo fragment assembly with short mate-paired reads: Does the read length matter? Chaisson MJ, Brinza D, Pevzner PA. Genome Res. 2009 PubMed
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Langmead B, Trapnell C, Pop M, Salzberg SL. Genome Biol. 2009 PubMed