| 2017 | Analysis of Min-Hashing for Variant Tolerant DNA Read Mapping. | Jens Quedenfeld, Sven Rahmann |
| 2017 | Byte-Aligned Pattern Matching in Encoded Genomic Sequences. | Petr Prochzka, Jan Holub |
| 2017 | ThIEF: Finding Genome-wide Trajectories of Epigenetics Marks. | Anton Polishko, Md. Abid Hasan, Weihua Pan, Evelien M. Bunnik, Karine G. Le Roch, Stefano Lonardi |
| 2017 | Forbidden Time Travel: Characterization of Time-Consistent Tree Reconciliation Maps. | Nikolai Njgaard, Manuela Gei, Daniel Merkle, Peter F. Stadler, Nicolas Wieseke, Marc Hellmuth |
| 2017 | All Fingers Are Not the Same: Handling Variable-Length Sequences in a Discriminative Setting Using Conformal Multi-Instance Kernels. | Sarvesh Nikumbh, Peter Ebert, Nico Pfeifer |
| 2017 | abSNP: RNA-Seq SNP Calling in Repetitive Regions via Abundance Estimation. | Shunfu Mao, Soheil Mohajer, Kannan Ramchandran, David Tse, Sreeram Kannan |
| 2017 | Vaquita: Fast and Accurate Identification of Structural Variation Using Combined Evidence. | Jongkyu Kim, Knut Reinert |
| 2017 | Sparsification Enables Predicting Kissing Hairpin Pseudoknot Structures of Long RNAs in Practice. | Hosna Jabbari, Ian Wark, Carlo Montemagno, Sebastian Will |
| 2017 | Shrinkage Clustering: A Fast and Size-Constrained Algorithm for Biomedical Applications. | Chenyue W. Hu, Hanyang Li, Amina A. Qutub |
| 2017 | Yanagi: Transcript Segment Library Construction for RNA-Seq Quantification. | Mohamed K. Gunady, Steffen Cornwell, Stephen M. Mount, Hctor Corrada Bravo |
| 2017 | Fast Spaced Seed Hashing. | Samuele Girotto, Matteo Comin, Cinzia Pizzi |
| 2017 | Improved De Novo Peptide Sequencing using LC Retention Time Information. | Yves Frank, Tomas Hruz, Thomas Tschager, Valentin Venzin |
| 2017 | A General Framework for Gene Tree Correction Based on Duplication-Loss Reconciliation. | Nadia El-Mabrouk, Ada Ouangraoua |
| 2017 | Towards Distance-Based Phylogenetic Inference in Average-Case Linear-Time. | Maxime Crochemore, Alexandre P. Francisco, Solon P. Pissis, Ctia Vaz |
| 2017 | Detecting Locus Acquisition Events in Gene Trees. | Michal Aleksander Ciach, Anna Muszewska, Pawel Grecki |
| 2017 | Optimal Completion of Incomplete Gene Trees in Polynomial Time Using OCTAL. | Sarah A. Christensen, Erin K. Molloy, Pranjal Vachaspati, Tandy J. Warnow |
| 2017 | Better Greedy Sequence Clustering with Fast Banded Alignment. | Brian Brubach, Jay Ghurye, Mihai Pop, Aravind Srinivasan |
| 2017 | Gene Tree Parsimony for Incomplete Gene Trees. | Md. Shamsuzzoha Bayzid, Tandy J. Warnow |
| 2017 | An IP Algorithm for RNA Folding Trajectories. | Amir H. Bayegan, Peter Clote |
| 2017 | Efficient and Accurate Detection of Topologically Associating Domains from Contact Maps. | Abbas Roayaei Ardakany, Stefano Lonardi |
| 2017 | Rainbowfish: A Succinct Colored de Bruijn Graph Representation. | Fatemeh Almodaresi, Prashant Pandey, Rob Patro |
| 2017 | Optimal Computation of Overabundant Words. | Yannis Almirantis, Panagiotis Charalampopoulos, Jia Gao, Costas S. Iliopoulos, Manal Mohamed, Solon P. Pissis, Dimitris Polychronopoulos |
| 2017 | Disentangled Long-Read De Bruijn Graphs via Optical Maps. | Bahar Alipanahi, Leena Salmela, Simon J. Puglisi, Martin D. Muggli, Christina Boucher |
| 2017 | Assessing the Significance of Peptide Spectrum Match Scores. | Anastasiia Abramova, Anton I. Korobeynikov |
| 2016 | A Hybrid Parameter Estimation Algorithm for Beta Mixtures and Applications to Methylation State Classification. | Christopher Schrder, Sven Rahmann |