Samuel S. Gross, Chuong B. Do, Marina Sirota, and Serafim Batzoglou. 2007. CONTRAST: A Discriminative, Phylogeny-Free Approach to Multiple Informant De Novo Gene Prediction. Genome Biology 8:R269. [PDF]

Drosophila 12 Genomes Consortium. 2007. Evolution of genes and genomes on the Drosophila phylogeny. Nature 450: 203-218. [PDF]

Samuel S. Gross, Olga Russakovsky, Chuong B. Do, and Serafim Batzoglou. 2006. Training Conditional Random Fields for Maximum Labelwise Accuracy. Advances in Neural Information Processing Systems 19 (NIPS 2006). [PDF]

Chuong B. Do, Samuel S. Gross, and Serafim Batzoglou. 2006. CONTRAlign: Discriminative Training for Protein Sequence Alignment. Proceedings of the Tenth Annual Conference On Research In Computational Molecular Biology (RECOMB 2006). [PDF]

Randall H. Brown, Samuel S. Gross, and Michael R. Brent. 2005. Begin at the beginning: Predicting genes with 5' UTRs. Genome Research 15: 742-747. [PDF]

Samuel S. Gross and Michael R. Brent. 2005. Using Multiple Alignments to Improve Gene Prediction. Proceedings of the Ninth Annual Conference On Research In Computational Molecular Biology (RECOMB 2005). [PDF]

Mark S. Conradi, Matthew A. Bruns, Alexander L. Sukstanskii, Samuel S. Gross, and Jason C. Leawoods. 2004. Feasibility of diffusion-NMR surface-to-volume measurements tested by calculations and computer simulations. Journal of Magnetic Resonance, 169(2), 196-202. [PDF]