| 2010 | Consistency of Sequence-Based Gene Clusters. | Roland Wittler, Jens Stoye |
| 2010 | Leveraging Sequence Classification by Taxonomy-Based Multitask Learning. | Christian Widmer, Jose Leiva, Yasemin Altun, Gunnar Rtsch |
| 2010 | Genome Aliquoting Revisited. | Robert Warren, David Sankoff |
| 2010 | Algorithms for Detecting Significantly Mutated Pathways in Cancer. | Fabio Vandin, Eli Upfal, Benjamin J. Raphael |
| 2010 | Novel Definition and Algorithm for Chaining Fragments with Proportional Overlaps. | Raluca Uricaru, Alban Mancheron, Eric Rivals |
| 2010 | HLA Type Inference via Haplotypes Identical by Descent. | Manu N. Setty, Alexander Gusev, Itsik Pe'er |
| 2010 | Time and Space Efficient RNA-RNA Interaction Prediction via Sparse Folding. | Raheleh Salari, Mathias Mhl, Sebastian Will, Sleyman Cenk Sahinalp, Rolf Backofen |
| 2010 | Dense Subgraphs with Restrictions and Applications to Gene Annotation Graphs. | Barna Saha, Allison Hoch, Samir Khuller, Louiqa Raschid, Xiao-Ning Zhang |
| 2010 | Predicting Nucleosome Positioning Using Multiple Evidence Tracks. | Sheila M. Reynolds, Zhiping Weng, Jeff A. Bilmes, William Stafford Noble |
| 2010 | Automated High-Dimensional Flow Cytometric Data Analysis. | Saumyadipta Pyne, Xinli Hu, Kui Wang, Elizabeth Rossin, Tsung-I Lin, Lisa Maier, Clare Baecher-Allan, Geoffrey J. McLachlan, Pablo Tamayo, David Hafler, Philip L. De Jager, Jill P. Mesirov |
| 2010 | IDBA - A Practical Iterative de Bruijn Graph De Novo Assembler. | Yu Peng, Henry C. M. Leung, Siu-Ming Yiu, Francis Y. L. Chin |
| 2010 | Cactus Graphs for Genome Comparisons. | Benedict Paten, Mark Diekhans, Dent Earl, John St. John, Jian Ma, Bernard B. Suh, David Haussler |
| 2010 | Accurate Estimation of Expression Levels of Homologous Genes in RNA-seq Experiments. | Bogdan Pasaniuc, Noah Zaitlen, Eran Halperin |
| 2010 | An Approximation Algorithm for Computing a Parsimonious First Speciation in the Gene Duplication Model. | Ada Ouangraoua, Krister M. Swenson, Cdric Chauve |
| 2010 | Ultra-Perfect Sorting Scenarios. | Ada Ouangraoua, Anne Bergeron, Krister M. Swenson |
| 2010 | Seed Design Framework for Mapping SOLiD Reads. | Laurent No, Marta Grdea, Gregory Kucherov |
| 2010 | Mapping Association between Long-Range | Emmanuel Mongin, Ken Dewar, Mathieu Blanchette |
| 2010 | Generalized Buneman Pruning for Inferring the Most Parsimonious Multi-state Phylogeny. | Navodit Misra, Guy E. Blelloch, R. Ravi, Russell Schwartz |
| 2010 | An Algorithm to Solve the Motif Alignment Problem for Approximate Nested Tandem Repeats. | Atheer A. Matroud, Michael D. Hendy, Christopher P. Tuffley |
| 2010 | The Complexity of the Gapped Consecutive-Ones Property Problem for Matrices of Bounded Maximum Degree. | Jn Manuch, Murray Patterson |
| 2010 | Fast and Accurate Phylogenetic Reconstruction from High-Resolution Whole-Genome Data and a Novel Robustness Estimator. | Yu Lin, Vaibhav Rajan, Bernard M. E. Moret |
| 2010 | A New Genomic Evolutionary Model for Rearrangements, Duplications, and Losses That Applies across Eukaryotes and Prokaryotes. | Yu Lin, Bernard M. E. Moret |
| 2010 | MoGUL: Detecting Common Insertions and Deletions in a Population. | Seunghak Lee, Eric P. Xing, Michael Brudno |
| 2010 | Genovo: | Jonathan Laserson, Vladimir Jojic, Daphne Koller |
| 2010 | On the Genealogy of Asexual Diploids. | Fumei Lam, Charles H. Langley, Yun S. Song |