| 2013 | A Linear Inside-Outside Algorithm for Correcting Sequencing Errors in Structured RNAs. Vladimir Reinharz, Yann Ponty, Jérôme Waldispühl |
| 2013 | Abstract: Using the Fast Fourier Transform to Accelerate the Computational Search for RNA Conformational Switches. Evan Senter, Saad Sheikh, Iván Dotú, Yann Ponty, Peter Clote |
| 2013 | An Accurate Method for Inferring Relatedness in Large Datasets of Unphased Genotypes via an Embedded Likelihood-Ratio Test. Jesse M. Rodriguez, Serafim Batzoglou, Sivan Bercovici |
| 2013 | An Algorithm for Constructing Parsimonious Hybridization Networks with Multiple Phylogenetic Trees. Yufeng Wu |
| 2013 | An Optimal Algorithm for Building the Majority Rule Consensus Tree. Jesper Jansson, Chuanqi Shen, Wing-Kin Sung |
| 2013 | Analysis of Metabolic Evolution in Bacteria Using Whole-Genome Metabolic Models. Ali A. Faruqi, William A. Bryant, John W. Pinney |
| 2013 | Assembling Genomes and Mini-metagenomes from Highly Chimeric Reads. Sergey Nurk, Anton Bankevich, Dmitry Antipov, Alexey A. Gurevich, Anton I. Korobeynikov, Alla L. Lapidus, Andrey D. Prjibelsky, Alex Pyshkin, Alexander Sirotkin, Yakov Sirotkin, Ramunas Stepanauskas, Jeffrey S. McLean, Roger Lasken, Scott R. Clingenpeel, Tanja Woyke, Glenn Tesler, Max A. Alekseyev, Pavel A. Pevzner |
| 2013 | Boosting Prediction Performance of Protein-Protein Interaction Hot Spots by Using Structural Neighborhood Properties - (Extended Abstract). Lei Deng, Jihong Guan, Xiaoming Wei, Yuan Yi, Shuigeng Zhou |
| 2013 | Considering Unknown Unknowns - Reconstruction of Non-confoundable Causal Relations in Biological Networks. Mohammad Javad Sadeh, Giusi Moffa, Rainer Spang |
| 2013 | Counting Motifs in the Entire Biological Network from Noisy and Incomplete Data - (Extended Abstract). Ngoc Hieu Tran, Kwok Pui Choi, Louxin Zhang |
| 2013 | Detecting Protein Conformational Changes in Interactions via Scaling Known Structures. Fei Guo, Shuai Cheng Li, Wenji Ma, Lusheng Wang |
| 2013 | Dissecting Cancer Heterogeneity with a Probabilistic Genotype-Phenotype Model. Dong-Yeon Cho, Teresa M. Przytycka |
| 2013 | Distinguishing between Genomic Regions Bound by Paralogous Transcription Factors. Alina Munteanu, Raluca Gordân |
| 2013 | Efficiently Identifying Significant Associations in Genome-Wide Association Studies. Emrah Kostem, Eleazar Eskin |
| 2013 | Extracting Structural Information from Residual Chemical Shift Anisotropy: Analytic Solutions for Peptide Plane Orientations and Applications to Determine Protein Structure. Chittaranjan Tripathy, Anthony K. Yan, Pei Zhou, Bruce Randall Donald |
| 2013 | Fast and Accurate Calculation of Protein Depth by Euclidean Distance Transform. Dong Xu, Hua Li, Yang Zhang |
| 2013 | Genome-Wide Survival Analysis of Somatic Mutations in Cancer. Fabio Vandin, Alexandra Papoutsaki, Benjamin J. Raphael, Eli Upfal |
| 2013 | High Resolution Modeling of Chromatin Interactions. Christopher Reeder, David Gifford |
| 2013 | IPED: Inheritance Path Based Pedigree Reconstruction Algorithm Using Genotype Data. Dan He, Zhanyong Wang, Buhm Han, Laxmi Parida, Eleazar Eskin |
| 2013 | Identification of Ultramodified Proteins Using Top-Down Spectra. Xiaowen Liu, Shawna Hengel, Si Wu, Nikola Tolic, Ljiljana Pasa-Tolic, Pavel A. Pevzner |
| 2013 | Inference of Spatial Organizations of Chromosomes Using Semi-definite Embedding Approach and Hi-C Data. ZhiZhuo Zhang, Guoliang Li, Kim-Chuan Toh, Wing-Kin Sung |
| 2013 | Inference of Tumor Phylogenies with Improved Somatic Mutation Discovery. Raheleh Salari, Syed Shayon Saleh, Dorna Kashef Haghighi, David Khavari, Daniel E. Newburger, Robert B. West, Arend Sidow, Serafim Batzoglou |
| 2013 | Inferring Intra-tumor Heterogeneity from High-Throughput DNA Sequencing Data. Layla Oesper, Ahmad Mahmoody, Benjamin J. Raphael |
| 2013 | Learning Natural Selection from the Site Frequency Spectrum. Roy Ronen, Nitin Udpa, Eran Halperin, Vineet Bafna |
| 2013 | MethylCRF, an Algorithm for Estimating Absolute Methylation Levels at Single CpG Resolution from Methylation Enrichment and Restriction Enzyme Sequencing Methods. Michael Stevens, Jeffrey B. Cheng, Mingchao Xie, Joseph F. Costello, Ting Wang |
| 2013 | NP-MuScL: Unsupervised Global Prediction of Interaction Networks from Multiple Data Sources. Kriti Puniyani, Eric P. Xing |
| 2013 | Reconciliation Revisited: Handling Multiple Optima When Reconciling with Duplication, Transfer, and Loss. Mukul S. Bansal, Eric J. Alm, Manolis Kellis |
| 2013 | Research in Computational Molecular Biology - 17th Annual International Conference, RECOMB 2013, Beijing, China, April 7-10, 2013. Proceedings Minghua Deng, Rui Jiang, Fengzhu Sun, Xuegong Zhang |
| 2013 | SEME: A Fast Mapper of Illumina Sequencing Reads with Statistical Evaluation. Shijian Chen, Anqi Wang, Lei M. Li |
| 2013 | SPARSE: Quadratic Time Simultaneous Alignment and Folding of RNAs without Sequence-Based Heuristics. Sebastian Will, Christina Schmiedl, Milad Miladi, Mathias Möhl, Rolf Backofen |
| 2013 | Spectral Library Generating Function for Assessing Spectrum-Spectrum Match Significance. Mingxun Wang, Nuno Bandeira |
| 2013 | UniNovo: A Universal Tool for de Novo Peptide Sequencing. Kyowon Jeong, Sangtae Kim, Pavel A. Pevzner |
| 2013 | eALPS: Estimating Abundance Levels in Pooled Sequencing Using Available Genotyping Data. Itamar Eskin, Farhad Hormozdiari, Lucía Conde, Jacques Riby, Chris Skibola, Eleazar Eskin, Eran Halperin |